Mock Version: 3.5 Mock Version: 3.5 Mock Version: 3.5 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-biopython.spec'], chrootPath='/var/lib/mock/dist-an23-epao-build-349004-70434/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=86400uid=982gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-biopython.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1705536000 Wrote: /builddir/build/SRPMS/python-biopython-1.83-1.an23.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-biopython.spec'], chrootPath='/var/lib/mock/dist-an23-epao-build-349004-70434/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=86400uid=982gid=135user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --noclean --target aarch64 --nodeps /builddir/build/SPECS/python-biopython.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False Building target platforms: aarch64 Building for target aarch64 setting SOURCE_DATE_EPOCH=1705536000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.44ZhHH + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf biopython-1.83 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/biopython-1.83.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd biopython-1.83 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + rm -rf biopython.egg-info + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.k1CqCY + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd biopython-1.83 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 ' + /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -s' running build running build_py creating build creating build/lib.linux-aarch64-cpython-310 creating build/lib.linux-aarch64-cpython-310/Bio copying Bio/File.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/LogisticRegression.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/MarkovModel.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/MaxEntropy.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/NaiveBayes.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/Seq.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/SeqFeature.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/SeqRecord.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/_utils.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/bgzf.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/kNN.py -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/pairwise2.py -> build/lib.linux-aarch64-cpython-310/Bio creating build/lib.linux-aarch64-cpython-310/Bio/Affy copying Bio/Affy/CelFile.py -> build/lib.linux-aarch64-cpython-310/Bio/Affy copying Bio/Affy/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Affy creating build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/AlignInfo.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/a2m.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/analysis.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/bed.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/bigbed.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/bigmaf.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/bigpsl.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/chain.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/clustal.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/emboss.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/exonerate.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/fasta.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/hhr.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/interfaces.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/maf.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/mauve.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/msf.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/nexus.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/phylip.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/psl.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/sam.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/stockholm.py -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/tabular.py -> build/lib.linux-aarch64-cpython-310/Bio/Align creating build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_ClustalOmega.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Clustalw.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Dialign.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_MSAProbs.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Mafft.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Muscle.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Prank.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_Probcons.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/_TCoffee.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications copying Bio/Align/Applications/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/Applications creating build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices copying Bio/Align/substitution_matrices/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices creating build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/ClustalIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/EmbossIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/FastaIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/Interfaces.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/MafIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/MauveIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/MsfIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/NexusIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/PhylipIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/StockholmIO.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO copying Bio/AlignIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/AlignIO creating build/lib.linux-aarch64-cpython-310/Bio/Alphabet copying Bio/Alphabet/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Alphabet creating build/lib.linux-aarch64-cpython-310/Bio/Application copying Bio/Application/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Application creating build/lib.linux-aarch64-cpython-310/Bio/Blast copying Bio/Blast/Applications.py -> build/lib.linux-aarch64-cpython-310/Bio/Blast copying Bio/Blast/NCBIWWW.py -> build/lib.linux-aarch64-cpython-310/Bio/Blast copying Bio/Blast/NCBIXML.py -> build/lib.linux-aarch64-cpython-310/Bio/Blast copying Bio/Blast/Record.py -> build/lib.linux-aarch64-cpython-310/Bio/Blast copying Bio/Blast/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Blast creating build/lib.linux-aarch64-cpython-310/Bio/CAPS copying Bio/CAPS/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/CAPS creating build/lib.linux-aarch64-cpython-310/Bio/Cluster copying Bio/Cluster/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Cluster creating build/lib.linux-aarch64-cpython-310/Bio/codonalign copying Bio/codonalign/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/codonalign copying Bio/codonalign/codonalignment.py -> build/lib.linux-aarch64-cpython-310/Bio/codonalign copying Bio/codonalign/codonseq.py -> build/lib.linux-aarch64-cpython-310/Bio/codonalign creating build/lib.linux-aarch64-cpython-310/Bio/Compass copying Bio/Compass/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Compass creating build/lib.linux-aarch64-cpython-310/Bio/Data copying Bio/Data/CodonTable.py -> build/lib.linux-aarch64-cpython-310/Bio/Data copying Bio/Data/IUPACData.py -> build/lib.linux-aarch64-cpython-310/Bio/Data copying Bio/Data/PDBData.py -> build/lib.linux-aarch64-cpython-310/Bio/Data copying Bio/Data/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Data creating build/lib.linux-aarch64-cpython-310/Bio/Emboss copying Bio/Emboss/Applications.py -> build/lib.linux-aarch64-cpython-310/Bio/Emboss copying Bio/Emboss/Primer3.py -> build/lib.linux-aarch64-cpython-310/Bio/Emboss copying Bio/Emboss/PrimerSearch.py -> build/lib.linux-aarch64-cpython-310/Bio/Emboss copying Bio/Emboss/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Emboss creating build/lib.linux-aarch64-cpython-310/Bio/Entrez copying Bio/Entrez/Parser.py -> build/lib.linux-aarch64-cpython-310/Bio/Entrez copying Bio/Entrez/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Entrez creating build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/Enzyme.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/Prodoc.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/Prosite.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/ScanProsite.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy copying Bio/ExPASy/cellosaurus.py -> build/lib.linux-aarch64-cpython-310/Bio/ExPASy creating build/lib.linux-aarch64-cpython-310/Bio/GenBank copying Bio/GenBank/Record.py -> build/lib.linux-aarch64-cpython-310/Bio/GenBank copying Bio/GenBank/Scanner.py -> build/lib.linux-aarch64-cpython-310/Bio/GenBank copying Bio/GenBank/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/GenBank copying Bio/GenBank/utils.py -> build/lib.linux-aarch64-cpython-310/Bio/GenBank creating build/lib.linux-aarch64-cpython-310/Bio/Geo copying Bio/Geo/Record.py -> build/lib.linux-aarch64-cpython-310/Bio/Geo copying Bio/Geo/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Geo creating build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/BasicChromosome.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/ColorSpiral.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/Comparative.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/DisplayRepresentation.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/Distribution.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/KGML_vis.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics copying Bio/Graphics/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics creating build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_AbstractDrawer.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_CircularDrawer.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Colors.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_CrossLink.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Diagram.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Feature.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_FeatureSet.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Graph.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_GraphSet.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_LinearDrawer.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/_Track.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram copying Bio/Graphics/GenomeDiagram/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram creating build/lib.linux-aarch64-cpython-310/Bio/HMM copying Bio/HMM/DynamicProgramming.py -> build/lib.linux-aarch64-cpython-310/Bio/HMM copying Bio/HMM/MarkovModel.py -> build/lib.linux-aarch64-cpython-310/Bio/HMM copying Bio/HMM/Trainer.py -> build/lib.linux-aarch64-cpython-310/Bio/HMM copying Bio/HMM/Utilities.py -> build/lib.linux-aarch64-cpython-310/Bio/HMM copying Bio/HMM/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/HMM creating build/lib.linux-aarch64-cpython-310/Bio/KEGG copying Bio/KEGG/REST.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG copying Bio/KEGG/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG creating build/lib.linux-aarch64-cpython-310/Bio/KEGG/Compound copying Bio/KEGG/Compound/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/Compound creating build/lib.linux-aarch64-cpython-310/Bio/KEGG/Enzyme copying Bio/KEGG/Enzyme/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/Enzyme creating build/lib.linux-aarch64-cpython-310/Bio/KEGG/Gene copying Bio/KEGG/Gene/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/Gene creating build/lib.linux-aarch64-cpython-310/Bio/KEGG/Map copying Bio/KEGG/Map/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/Map creating build/lib.linux-aarch64-cpython-310/Bio/PDB creating build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf copying Bio/PDB/mmtf/DefaultParser.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf copying Bio/PDB/mmtf/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf copying Bio/PDB/mmtf/mmtfio.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf creating build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML copying Bio/KEGG/KGML/KGML_parser.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML copying Bio/KEGG/KGML/KGML_pathway.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML copying Bio/KEGG/KGML/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML creating build/lib.linux-aarch64-cpython-310/Bio/Medline copying Bio/Medline/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Medline creating build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/alignace.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/clusterbuster.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/mast.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/matrix.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/meme.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/minimal.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/pfm.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/thresholds.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/transfac.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/motifs/xms.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs creating build/lib.linux-aarch64-cpython-310/Bio/motifs/applications copying Bio/motifs/applications/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs/applications copying Bio/motifs/applications/_xxmotif.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs/applications creating build/lib.linux-aarch64-cpython-310/Bio/motifs/jaspar copying Bio/motifs/jaspar/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs/jaspar copying Bio/motifs/jaspar/db.py -> build/lib.linux-aarch64-cpython-310/Bio/motifs/jaspar creating build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/Nexus/Nexus.py -> build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/Nexus/Nodes.py -> build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/Nexus/StandardData.py -> build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/Nexus/Trees.py -> build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/Nexus/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Nexus creating build/lib.linux-aarch64-cpython-310/Bio/NMR copying Bio/NMR/NOEtools.py -> build/lib.linux-aarch64-cpython-310/Bio/NMR copying Bio/NMR/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/NMR copying Bio/NMR/xpktools.py -> build/lib.linux-aarch64-cpython-310/Bio/NMR creating build/lib.linux-aarch64-cpython-310/Bio/Pathway copying Bio/Pathway/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Pathway creating build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep copying Bio/Pathway/Rep/Graph.py -> build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep copying Bio/Pathway/Rep/MultiGraph.py -> build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep copying Bio/Pathway/Rep/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep copying Bio/PDB/AbstractPropertyMap.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Atom.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Chain.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/DSSP.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Dice.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Entity.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/FragmentMapper.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/HSExposure.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/MMCIF2Dict.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/MMCIFParser.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Model.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/NACCESS.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/NeighborSearch.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PDBExceptions.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PDBIO.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PDBList.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PDBParser.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PICIO.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/PSEA.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Polypeptide.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Residue.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/ResidueDepth.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/SASA.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/SCADIO.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Selection.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Structure.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/StructureAlignment.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/StructureBuilder.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/Superimposer.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/cealign.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/ic_data.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/ic_rebuild.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/internal_coords.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/mmcifio.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/parse_pdb_header.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/qcprot.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/vectors.py -> build/lib.linux-aarch64-cpython-310/Bio/PDB creating build/lib.linux-aarch64-cpython-310/Bio/phenotype copying Bio/phenotype/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/phenotype copying Bio/phenotype/phen_micro.py -> build/lib.linux-aarch64-cpython-310/Bio/phenotype copying Bio/phenotype/pm_fitting.py -> build/lib.linux-aarch64-cpython-310/Bio/phenotype creating build/lib.linux-aarch64-cpython-310/Bio/PopGen copying Bio/PopGen/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen creating build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/Controller.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/EasyController.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/FileParser.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/LargeFileParser.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop copying Bio/PopGen/GenePop/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop creating build/lib.linux-aarch64-cpython-310/Bio/Restriction copying Bio/Restriction/PrintFormat.py -> build/lib.linux-aarch64-cpython-310/Bio/Restriction copying Bio/Restriction/Restriction.py -> build/lib.linux-aarch64-cpython-310/Bio/Restriction copying Bio/Restriction/Restriction_Dictionary.py -> build/lib.linux-aarch64-cpython-310/Bio/Restriction copying Bio/Restriction/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Restriction creating build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Cla.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Des.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Dom.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Hie.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Raf.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/Residues.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP copying Bio/SCOP/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SCOP creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO copying Bio/SearchIO/BlatIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO copying Bio/SearchIO/FastaIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO copying Bio/SearchIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO copying Bio/SearchIO/_index.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO copying Bio/SearchIO/_utils.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model copying Bio/SearchIO/_model/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model copying Bio/SearchIO/_model/_base.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model copying Bio/SearchIO/_model/hit.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model copying Bio/SearchIO/_model/hsp.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model copying Bio/SearchIO/_model/query.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_tab.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO copying Bio/SearchIO/BlastIO/blast_xml.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HHsuiteIO copying Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HHsuiteIO creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/_base.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer2_text.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_domtab.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_tab.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO copying Bio/SearchIO/HmmerIO/hmmer3_text.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/_base.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_cigar.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_text.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO copying Bio/SearchIO/ExonerateIO/exonerate_vulgar.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO creating build/lib.linux-aarch64-cpython-310/Bio/SearchIO/InterproscanIO copying Bio/SearchIO/InterproscanIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/InterproscanIO copying Bio/SearchIO/InterproscanIO/interproscan_xml.py -> build/lib.linux-aarch64-cpython-310/Bio/SearchIO/InterproscanIO creating build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/AbiIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/AceIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/FastaIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/GckIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/IgIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/InsdcIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/Interfaces.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/NibIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/PdbIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/PhdIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/PirIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/QualityIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/SeqXmlIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/SffIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/SnapGeneIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/SwissIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/TabIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/TwoBitIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/UniprotIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/XdnaIO.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying Bio/SeqIO/_index.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO creating build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/CheckSum.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/IsoelectricPoint.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/MeltingTemp.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/ProtParam.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/ProtParamData.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils copying Bio/SeqUtils/lcc.py -> build/lib.linux-aarch64-cpython-310/Bio/SeqUtils creating build/lib.linux-aarch64-cpython-310/Bio/Sequencing copying Bio/Sequencing/Ace.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing copying Bio/Sequencing/Phd.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing copying Bio/Sequencing/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing creating build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_Novoalign.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_bwa.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications copying Bio/Sequencing/Applications/_samtools.py -> build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications creating build/lib.linux-aarch64-cpython-310/Bio/SVDSuperimposer copying Bio/SVDSuperimposer/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SVDSuperimposer creating build/lib.linux-aarch64-cpython-310/Bio/SwissProt copying Bio/SwissProt/KeyWList.py -> build/lib.linux-aarch64-cpython-310/Bio/SwissProt copying Bio/SwissProt/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/SwissProt creating build/lib.linux-aarch64-cpython-310/Bio/TogoWS copying Bio/TogoWS/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/TogoWS creating build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/BaseTree.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/CDAO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/CDAOIO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/Consensus.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/NeXML.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/NeXMLIO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/Newick.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/NewickIO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/NexusIO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/PhyloXML.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/PhyloXMLIO.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/TreeConstruction.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/_cdao_owl.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/_io.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo copying Bio/Phylo/_utils.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo creating build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Fasttree.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Phyml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications copying Bio/Phylo/Applications/_Raxml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications copying Bio/Phylo/Applications/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications creating build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/_paml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_baseml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_codeml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/_parse_yn00.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/baseml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/chi2.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/codeml.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML copying Bio/Phylo/PAML/yn00.py -> build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML creating build/lib.linux-aarch64-cpython-310/Bio/UniGene copying Bio/UniGene/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/UniGene creating build/lib.linux-aarch64-cpython-310/Bio/UniProt copying Bio/UniProt/GOA.py -> build/lib.linux-aarch64-cpython-310/Bio/UniProt copying Bio/UniProt/__init__.py -> build/lib.linux-aarch64-cpython-310/Bio/UniProt creating build/lib.linux-aarch64-cpython-310/BioSQL copying BioSQL/BioSeq.py -> build/lib.linux-aarch64-cpython-310/BioSQL copying BioSQL/BioSeqDatabase.py -> build/lib.linux-aarch64-cpython-310/BioSQL copying BioSQL/DBUtils.py -> build/lib.linux-aarch64-cpython-310/BioSQL copying BioSQL/Loader.py -> build/lib.linux-aarch64-cpython-310/BioSQL copying BioSQL/__init__.py -> build/lib.linux-aarch64-cpython-310/BioSQL running egg_info creating biopython.egg-info writing biopython.egg-info/PKG-INFO writing dependency_links to biopython.egg-info/dependency_links.txt writing requirements to biopython.egg-info/requires.txt writing top-level names to biopython.egg-info/top_level.txt writing manifest file 'biopython.egg-info/SOURCES.txt' reading manifest file 'biopython.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.py{}' found anywhere in distribution warning: no previously-included files matching '*.py-e' found anywhere in distribution warning: no previously-included files found matching 'Bio/Align/substitution_matrices/data/README.txt' adding license file 'LICENSE' adding license file 'LICENSE.rst' writing manifest file 'biopython.egg-info/SOURCES.txt' /usr/lib/python3.10/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Align.substitution_matrices.data' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Align.substitution_matrices.data' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Align.substitution_matrices.data' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Align.substitution_matrices.data' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3.10/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.DTDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.DTDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.DTDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.DTDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) /usr/lib/python3.10/site-packages/setuptools/command/build_py.py:202: SetuptoolsDeprecationWarning: Installing 'Bio.Entrez.XSDs' as data is deprecated, please list it in `packages`. !! ############################ # Package would be ignored # ############################ Python recognizes 'Bio.Entrez.XSDs' as an importable package, but it is not listed in the `packages` configuration of setuptools. 'Bio.Entrez.XSDs' has been automatically added to the distribution only because it may contain data files, but this behavior is likely to change in future versions of setuptools (and therefore is considered deprecated). Please make sure that 'Bio.Entrez.XSDs' is included as a package by using the `packages` configuration field or the proper discovery methods (for example by using `find_namespace_packages(...)`/`find_namespace:` instead of `find_packages(...)`/`find:`). You can read more about "package discovery" and "data files" on setuptools documentation page. !! check.warn(importable) copying Bio/cpairwise2module.c -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/py.typed -> build/lib.linux-aarch64-cpython-310/Bio copying Bio/Align/_codonaligner.c -> build/lib.linux-aarch64-cpython-310/Bio/Align copying Bio/Align/_pairwisealigner.c -> build/lib.linux-aarch64-cpython-310/Bio/Align creating build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER22 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER6 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BENNER74 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLASTN -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLASTP -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM45 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM50 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM62 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM80 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/BLOSUM90 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/DAYHOFF -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/FENG -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/GENETIC -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/GONNET1992 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/HOXD70 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/JOHNSON -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/JONES -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/LEVIN -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MCLACHLAN -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MDM78 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/MEGABLAST -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/NUC.4.4 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM250 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM30 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/PAM70 -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/RAO -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/RISLER -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/SCHNEIDER -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/STR -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Align/substitution_matrices/data/TRANS -> build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data copying Bio/Cluster/cluster.c -> build/lib.linux-aarch64-cpython-310/Bio/Cluster copying Bio/Cluster/cluster.h -> build/lib.linux-aarch64-cpython-310/Bio/Cluster copying Bio/Cluster/clustermodule.c -> build/lib.linux-aarch64-cpython-310/Bio/Cluster creating build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/BITS-embedded-index2.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/BITS-question-answer2.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_0.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_0.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_1.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_1.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_2.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_2.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_3.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_3.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_4.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/Docsum_3_4.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/EMBL_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/EMBL_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/GenBank_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/GenBank_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/HomoloGene.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/HomoloGene.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/INSD_INSDSeq.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/INSD_INSDSeq.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-XHTMLtablesetup1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-ali-namespace1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivearticle1-3-mathml3.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-classes1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-mixes1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-models1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-archivecustom-modules1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-articlemeta1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-backmatter1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-chars1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-common-atts1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-common1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-default-classes1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-default-mixes1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-display1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-format1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-funding1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-journalmeta1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-link1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-list1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-math1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-mathml3-mathmlsetup1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-mathml3-modules1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-modules1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-nlmcitation1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-notat1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-para1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-phrase1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-references1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-related-object1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-section1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/JATS-xmlspecchars1-3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Chemical_graph.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Chemical_graph.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Features.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Features.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Structural_model.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/MMDB_Structural_model.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Access.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Access.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Biblio.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioSource.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioTree.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BioTree.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Blast4.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Blast4.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastDL.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastDL.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastOutput.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cdd.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cdd.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cn3d.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Cn3d.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entity.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrez2.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrez2.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrezgene.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_FeatDef.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_FeatDef.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_GBSeq.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_GBSeq.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Gene.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Gene.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID1Access.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID1Access.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID2Access.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ID2Access.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_MedArchive.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_MedArchive.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medlars.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medlars.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medline.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Medline.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mim.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mim.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mime.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Mime.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ObjPrt.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ObjPrt.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Organism.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Organism.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCAssay.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCAssay.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCSubstance.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PCSubstance.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Project.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Project.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Protein.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Protein.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Pub.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Pub.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PubMed.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_PubMed.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_RNA.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_RNA.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Remap.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Remap.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Rsite.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Rsite.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ScoreMat.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_ScoreMat.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqCode.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqCode.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqTable.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_SeqTable.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seq_split.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seq_split.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqalign.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqalign.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqfeat.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqfeat.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqloc.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqloc.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqres.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqres.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqset.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Seqset.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Sequence.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Sequence.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Submit.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Submit.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Systems.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TSeq.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TSeq.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TxInit.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_TxInit.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Variation.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_Variation.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NCBI_all.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NSE.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/NSE.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/OMSSA.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/OMSSA.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PDB_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PDB_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PIR_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PIR_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PRF_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/PRF_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/SP_General.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/SP_General.mod.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/XHTMLtablesetup.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivearticle.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-classes.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-mixes.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-models.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/archivecustom-modules.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/articlemeta.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/backmatter.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_100301.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_110101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_120101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_130101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_140101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/bookdoc_150101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/chars.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/common.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/default-classes.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/default-mixes.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/display.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eInfo_020511.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eLink_090910.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eLink_101123.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/ePost_020511.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSearch_020511.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSpell.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/eSummary_041029.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/egquery.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/einfo.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/elink.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/elink_020122.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/epost.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/esearch.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/esummary-v1.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/esummary_gene.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/format.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/htmltable.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsa.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsb.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsc.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsn.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamso.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isoamsr.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isobox.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isocyr1.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isocyr2.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isodia.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk1.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk2.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk3.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isogrk4.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isolat1.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isolat2.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomfrk.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomopf.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isomscr.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isonum.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isopub.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/isotech.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/journalmeta.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/link.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/list.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/math.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml-in-pubmed.mod -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml2-qname-1.mod -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml2.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml3-qname1.mod -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathml3.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mathmlsetup.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mmlalias.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/mmlextra.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/modules.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlm-articleset-2.0.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_011101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmcommon_090101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_011101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedline_090101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_100301.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_110101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_120101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_130101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_130501.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_140101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmmedlinecitationset_150101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmserials_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmserials_100101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/notat.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/para.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/phrase.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pmc-1.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_020114.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_080101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_090101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_100101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_100301.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_110101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_120101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_130101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_130501.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_140101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_150101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_180101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_180601.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/pubmed_190101.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/references.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/section.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/taxon.dtd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xhtml-inlstyle-1.mod -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xhtml-table-1.mod -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs copying Bio/Entrez/DTDs/xmlspecchars.ent -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs creating build/lib.linux-aarch64-cpython-310/Bio/Entrez/XSDs copying Bio/Entrez/XSDs/IPGReportSet.xsd -> build/lib.linux-aarch64-cpython-310/Bio/Entrez/XSDs copying Bio/motifs/_pwm.c -> build/lib.linux-aarch64-cpython-310/Bio/motifs copying Bio/Nexus/cnexus.c -> build/lib.linux-aarch64-cpython-310/Bio/Nexus copying Bio/PDB/ccealignmodule.c -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/PDB/kdtrees.c -> build/lib.linux-aarch64-cpython-310/Bio/PDB copying Bio/SeqIO/_twoBitIO.c -> build/lib.linux-aarch64-cpython-310/Bio/SeqIO copying BioSQL/py.typed -> build/lib.linux-aarch64-cpython-310/BioSQL running build_ext building 'Bio.Align._codonaligner' extension creating build/temp.linux-aarch64-cpython-310 creating build/temp.linux-aarch64-cpython-310/Bio creating build/temp.linux-aarch64-cpython-310/Bio/Align gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/Align/_codonaligner.c -o build/temp.linux-aarch64-cpython-310/Bio/Align/_codonaligner.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/Align/_codonaligner.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/Align/_codonaligner.cpython-310-aarch64-linux-gnu.so building 'Bio.Align._pairwisealigner' extension gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/Align/_pairwisealigner.c -o build/temp.linux-aarch64-cpython-310/Bio/Align/_pairwisealigner.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/Align/_pairwisealigner.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/Align/_pairwisealigner.cpython-310-aarch64-linux-gnu.so building 'Bio.cpairwise2' extension gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/cpairwise2module.c -o build/temp.linux-aarch64-cpython-310/Bio/cpairwise2module.o Bio/cpairwise2module.c: In function ‘_get_match_score’: Bio/cpairwise2module.c:60:5: warning: ‘PyEval_CallObjectWithKeywords’ is deprecated [-Wdeprecated-declarations] 60 | if(!(py_result = PyEval_CallObject(py_match_fn, py_arglist))) | ^~ In file included from /usr/include/python3.10/Python.h:130, from Bio/cpairwise2module.c:16: /usr/include/python3.10/ceval.h:17:43: note: declared here 17 | Py_DEPRECATED(3.9) PyAPI_FUNC(PyObject *) PyEval_CallObjectWithKeywords( | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/cpairwise2module.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/cpairwise2.cpython-310-aarch64-linux-gnu.so building 'Bio.Nexus.cnexus' extension creating build/temp.linux-aarch64-cpython-310/Bio/Nexus gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/Nexus/cnexus.c -o build/temp.linux-aarch64-cpython-310/Bio/Nexus/cnexus.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/Nexus/cnexus.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/Nexus/cnexus.cpython-310-aarch64-linux-gnu.so building 'Bio.motifs._pwm' extension creating build/temp.linux-aarch64-cpython-310/Bio/motifs gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/motifs/_pwm.c -o build/temp.linux-aarch64-cpython-310/Bio/motifs/_pwm.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/motifs/_pwm.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/motifs/_pwm.cpython-310-aarch64-linux-gnu.so building 'Bio.Cluster._cluster' extension creating build/temp.linux-aarch64-cpython-310/Bio/Cluster gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/Cluster/cluster.c -o build/temp.linux-aarch64-cpython-310/Bio/Cluster/cluster.o gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/Cluster/clustermodule.c -o build/temp.linux-aarch64-cpython-310/Bio/Cluster/clustermodule.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/Cluster/cluster.o build/temp.linux-aarch64-cpython-310/Bio/Cluster/clustermodule.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/Cluster/_cluster.cpython-310-aarch64-linux-gnu.so building 'Bio.PDB.kdtrees' extension creating build/temp.linux-aarch64-cpython-310/Bio/PDB gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/PDB/kdtrees.c -o build/temp.linux-aarch64-cpython-310/Bio/PDB/kdtrees.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/PDB/kdtrees.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/PDB/kdtrees.cpython-310-aarch64-linux-gnu.so building 'Bio.PDB.ccealign' extension gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/PDB/ccealignmodule.c -o build/temp.linux-aarch64-cpython-310/Bio/PDB/ccealignmodule.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/PDB/ccealignmodule.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/PDB/ccealign.cpython-310-aarch64-linux-gnu.so building 'Bio.SeqIO._twoBitIO' extension creating build/temp.linux-aarch64-cpython-310/Bio/SeqIO gcc -Wno-unused-result -Wsign-compare -DNDEBUG -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fstack-protector-strong -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -D_GNU_SOURCE -fPIC -fwrapv -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -fPIC -I/usr/include/python3.10 -c Bio/SeqIO/_twoBitIO.c -o build/temp.linux-aarch64-cpython-310/Bio/SeqIO/_twoBitIO.o gcc -shared -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -Wl,--build-id=sha1 -g -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection build/temp.linux-aarch64-cpython-310/Bio/SeqIO/_twoBitIO.o -L/usr/lib64 -lpython3.10 -o build/lib.linux-aarch64-cpython-310/Bio/SeqIO/_twoBitIO.cpython-310-aarch64-linux-gnu.so + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.8FwSvc + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 ++ dirname /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd biopython-1.83 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 ' + /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 running install /usr/lib/python3.10/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running install_lib creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64 creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10 creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/File.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/LogisticRegression.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/MarkovModel.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/MaxEntropy.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/NaiveBayes.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/Seq.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/SeqFeature.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/SeqRecord.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/_utils.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/bgzf.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/kNN.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/pairwise2.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Affy copying build/lib.linux-aarch64-cpython-310/Bio/Affy/CelFile.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Affy copying build/lib.linux-aarch64-cpython-310/Bio/Affy/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Affy creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/AlignInfo.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/a2m.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/analysis.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/bed.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/bigbed.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/bigmaf.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/bigpsl.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/chain.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/clustal.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/emboss.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/exonerate.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/fasta.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/hhr.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/interfaces.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/maf.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/mauve.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/msf.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/nexus.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/phylip.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/psl.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/sam.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/stockholm.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/tabular.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_ClustalOmega.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Clustalw.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Dialign.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_MSAProbs.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Mafft.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Muscle.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Prank.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_Probcons.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/_TCoffee.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Align/Applications/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BENNER22 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BENNER6 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BENNER74 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLASTN -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLASTP -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLOSUM45 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLOSUM50 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLOSUM62 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLOSUM80 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/BLOSUM90 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/DAYHOFF -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/FENG -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/GENETIC -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/GONNET1992 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/HOXD70 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/JOHNSON -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/JONES -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/LEVIN -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/MCLACHLAN -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/MDM78 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/MEGABLAST -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/NUC.4.4 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/PAM250 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/PAM30 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/PAM70 -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/RAO -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/RISLER -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/SCHNEIDER -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/STR -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/substitution_matrices/data/TRANS -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/data copying build/lib.linux-aarch64-cpython-310/Bio/Align/_codonaligner.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/_pairwisealigner.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/_codonaligner.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align copying build/lib.linux-aarch64-cpython-310/Bio/Align/_pairwisealigner.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/ClustalIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/EmbossIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/FastaIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/Interfaces.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/MafIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/MauveIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/MsfIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/NexusIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/PhylipIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/StockholmIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO copying build/lib.linux-aarch64-cpython-310/Bio/AlignIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Alphabet copying build/lib.linux-aarch64-cpython-310/Bio/Alphabet/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Alphabet creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Application copying build/lib.linux-aarch64-cpython-310/Bio/Application/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Application creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast copying build/lib.linux-aarch64-cpython-310/Bio/Blast/Applications.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast copying build/lib.linux-aarch64-cpython-310/Bio/Blast/NCBIWWW.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast copying build/lib.linux-aarch64-cpython-310/Bio/Blast/NCBIXML.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast copying build/lib.linux-aarch64-cpython-310/Bio/Blast/Record.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast copying build/lib.linux-aarch64-cpython-310/Bio/Blast/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/CAPS copying build/lib.linux-aarch64-cpython-310/Bio/CAPS/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/CAPS creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster copying build/lib.linux-aarch64-cpython-310/Bio/Cluster/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster copying build/lib.linux-aarch64-cpython-310/Bio/Cluster/cluster.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster copying build/lib.linux-aarch64-cpython-310/Bio/Cluster/cluster.h -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster copying build/lib.linux-aarch64-cpython-310/Bio/Cluster/clustermodule.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster copying build/lib.linux-aarch64-cpython-310/Bio/Cluster/_cluster.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign copying build/lib.linux-aarch64-cpython-310/Bio/codonalign/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign copying build/lib.linux-aarch64-cpython-310/Bio/codonalign/codonalignment.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign copying build/lib.linux-aarch64-cpython-310/Bio/codonalign/codonseq.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Compass copying build/lib.linux-aarch64-cpython-310/Bio/Compass/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Compass creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data copying build/lib.linux-aarch64-cpython-310/Bio/Data/CodonTable.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data copying build/lib.linux-aarch64-cpython-310/Bio/Data/IUPACData.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data copying build/lib.linux-aarch64-cpython-310/Bio/Data/PDBData.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data copying build/lib.linux-aarch64-cpython-310/Bio/Data/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss copying build/lib.linux-aarch64-cpython-310/Bio/Emboss/Applications.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss copying build/lib.linux-aarch64-cpython-310/Bio/Emboss/Primer3.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss copying build/lib.linux-aarch64-cpython-310/Bio/Emboss/PrimerSearch.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss copying build/lib.linux-aarch64-cpython-310/Bio/Emboss/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/Parser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/BITS-embedded-index2.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/BITS-question-answer2.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_0.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_0.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_1.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_1.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_2.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_2.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_3.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_3.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_4.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/Docsum_3_4.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/EMBL_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/EMBL_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/GenBank_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/GenBank_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/HomoloGene.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/HomoloGene.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/INSD_INSDSeq.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/INSD_INSDSeq.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-XHTMLtablesetup1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-ali-namespace1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-archivearticle1-3-mathml3.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-archivecustom-classes1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-archivecustom-mixes1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-archivecustom-models1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-archivecustom-modules1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-articlemeta1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-backmatter1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-chars1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-common-atts1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-common1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-default-classes1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-default-mixes1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-display1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-format1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-funding1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-journalmeta1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-link1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-list1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-math1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-mathml3-mathmlsetup1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-mathml3-modules1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-modules1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-nlmcitation1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-notat1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-para1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-phrase1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-references1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-related-object1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-section1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/JATS-xmlspecchars1-3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Chemical_graph.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Chemical_graph.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Features.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Features.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Structural_model.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/MMDB_Structural_model.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Access.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Access.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Biblio.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Biblio.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BioSource.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BioSource.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BioTree.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BioTree.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Blast4.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Blast4.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BlastDL.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BlastDL.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BlastOutput.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_BlastOutput.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Cdd.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Cdd.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Cn3d.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Cn3d.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Entity.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Entrez2.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Entrez2.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Entrezgene.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Entrezgene.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_FeatDef.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_FeatDef.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_GBSeq.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_GBSeq.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Gene.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Gene.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ID1Access.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ID1Access.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ID2Access.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ID2Access.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_MedArchive.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_MedArchive.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Medlars.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Medlars.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Medline.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Medline.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Mim.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Mim.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Mime.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Mime.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ObjPrt.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ObjPrt.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Organism.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Organism.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PCAssay.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PCAssay.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PCSubstance.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PCSubstance.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Project.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Project.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Protein.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Protein.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Pub.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Pub.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PubMed.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_PubMed.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_RNA.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_RNA.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Remap.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Remap.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Rsite.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Rsite.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ScoreMat.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_ScoreMat.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_SeqCode.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_SeqCode.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_SeqTable.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_SeqTable.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seq_split.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seq_split.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqalign.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqalign.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqfeat.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqfeat.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqloc.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqloc.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqres.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqres.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqset.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Seqset.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Sequence.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Sequence.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Submit.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Submit.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Systems.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_TSeq.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_TSeq.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_TxInit.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_TxInit.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Variation.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_Variation.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NCBI_all.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NSE.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/NSE.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/OMSSA.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/OMSSA.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PDB_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PDB_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PIR_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PIR_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PRF_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/PRF_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/SP_General.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/SP_General.mod.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/XHTMLtablesetup.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/archivearticle.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/archivecustom-classes.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/archivecustom-mixes.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/archivecustom-models.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/archivecustom-modules.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/articlemeta.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/backmatter.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_100301.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_110101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_120101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_130101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_140101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/bookdoc_150101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/chars.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/common.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/default-classes.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/default-mixes.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/display.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eInfo_020511.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eLink_090910.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eLink_101123.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/ePost_020511.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eSearch_020511.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eSpell.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/eSummary_041029.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/egquery.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/einfo.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/elink.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/elink_020122.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/epost.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/esearch.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/esummary-v1.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/esummary_gene.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/format.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/htmltable.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamsa.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamsb.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamsc.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamsn.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamso.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isoamsr.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isobox.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isocyr1.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isocyr2.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isodia.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isogrk1.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isogrk2.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isogrk3.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isogrk4.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isolat1.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isolat2.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isomfrk.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isomopf.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isomscr.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isonum.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isopub.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/isotech.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/journalmeta.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/link.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/list.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/math.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathml-in-pubmed.mod -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathml2-qname-1.mod -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathml2.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathml3-qname1.mod -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathml3.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mathmlsetup.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mmlalias.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/mmlextra.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/modules.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlm-articleset-2.0.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmcommon_011101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmcommon_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmcommon_090101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedline_011101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedline_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedline_090101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitation_011101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitation_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitation_090101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_100101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_100301.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_110101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_120101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_130101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_130501.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_140101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmmedlinecitationset_150101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmserials_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmserials_100101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmsharedcatcit_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/nlmsharedcatcit_090101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/notat.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/para.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/phrase.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pmc-1.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_020114.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_080101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_090101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_100101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_100301.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_110101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_120101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_130101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_130501.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_140101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_150101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_180101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_180601.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/pubmed_190101.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/references.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/section.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/taxon.dtd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/xhtml-inlstyle-1.mod -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/xhtml-table-1.mod -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/DTDs/xmlspecchars.ent -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/DTDs creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/XSDs copying build/lib.linux-aarch64-cpython-310/Bio/Entrez/XSDs/IPGReportSet.xsd -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/XSDs creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/Enzyme.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/Prodoc.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/Prosite.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/ScanProsite.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy copying build/lib.linux-aarch64-cpython-310/Bio/ExPASy/cellosaurus.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank copying build/lib.linux-aarch64-cpython-310/Bio/GenBank/Record.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank copying build/lib.linux-aarch64-cpython-310/Bio/GenBank/Scanner.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank copying build/lib.linux-aarch64-cpython-310/Bio/GenBank/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank copying build/lib.linux-aarch64-cpython-310/Bio/GenBank/utils.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Geo copying build/lib.linux-aarch64-cpython-310/Bio/Geo/Record.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Geo copying build/lib.linux-aarch64-cpython-310/Bio/Geo/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Geo creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/BasicChromosome.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/ColorSpiral.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/Comparative.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/DisplayRepresentation.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/Distribution.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/KGML_vis.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_CircularDrawer.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_Colors.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_CrossLink.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_Diagram.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_Feature.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_FeatureSet.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_Graph.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_GraphSet.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_LinearDrawer.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/_Track.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram copying build/lib.linux-aarch64-cpython-310/Bio/Graphics/GenomeDiagram/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM copying build/lib.linux-aarch64-cpython-310/Bio/HMM/DynamicProgramming.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM copying build/lib.linux-aarch64-cpython-310/Bio/HMM/MarkovModel.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM copying build/lib.linux-aarch64-cpython-310/Bio/HMM/Trainer.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM copying build/lib.linux-aarch64-cpython-310/Bio/HMM/Utilities.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM copying build/lib.linux-aarch64-cpython-310/Bio/HMM/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/REST.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Compound copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/Compound/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Compound creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Enzyme copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/Enzyme/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Enzyme creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Gene copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/Gene/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Gene creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Map copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/Map/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Map creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML/KGML_parser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML/KGML_pathway.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML copying build/lib.linux-aarch64-cpython-310/Bio/KEGG/KGML/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf copying build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf/DefaultParser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf copying build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf copying build/lib.linux-aarch64-cpython-310/Bio/PDB/mmtf/mmtfio.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf copying build/lib.linux-aarch64-cpython-310/Bio/PDB/AbstractPropertyMap.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Atom.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Chain.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/DSSP.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Dice.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Entity.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/FragmentMapper.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/HSExposure.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/MMCIF2Dict.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/MMCIFParser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Model.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/NACCESS.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/NeighborSearch.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PDBExceptions.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PDBIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PDBList.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PDBParser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PICIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/PSEA.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Polypeptide.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Residue.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/ResidueDepth.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/SASA.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/SCADIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Selection.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Structure.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/StructureAlignment.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/StructureBuilder.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/Superimposer.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/cealign.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/ic_data.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/ic_rebuild.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/internal_coords.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/mmcifio.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/parse_pdb_header.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/qcprot.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/vectors.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/ccealignmodule.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/kdtrees.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/kdtrees.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB copying build/lib.linux-aarch64-cpython-310/Bio/PDB/ccealign.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Medline copying build/lib.linux-aarch64-cpython-310/Bio/Medline/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Medline creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/alignace.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/clusterbuster.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/mast.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/matrix.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/meme.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/minimal.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/pfm.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/thresholds.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/transfac.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/xms.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/applications copying build/lib.linux-aarch64-cpython-310/Bio/motifs/applications/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/applications copying build/lib.linux-aarch64-cpython-310/Bio/motifs/applications/_xxmotif.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/applications creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/jaspar copying build/lib.linux-aarch64-cpython-310/Bio/motifs/jaspar/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/jaspar copying build/lib.linux-aarch64-cpython-310/Bio/motifs/jaspar/db.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/jaspar copying build/lib.linux-aarch64-cpython-310/Bio/motifs/_pwm.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs copying build/lib.linux-aarch64-cpython-310/Bio/motifs/_pwm.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/Nexus.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/Nodes.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/StandardData.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/Trees.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/cnexus.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus copying build/lib.linux-aarch64-cpython-310/Bio/Nexus/cnexus.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR copying build/lib.linux-aarch64-cpython-310/Bio/NMR/NOEtools.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR copying build/lib.linux-aarch64-cpython-310/Bio/NMR/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR copying build/lib.linux-aarch64-cpython-310/Bio/NMR/xpktools.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway copying build/lib.linux-aarch64-cpython-310/Bio/Pathway/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep copying build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep/Graph.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep copying build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep/MultiGraph.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep copying build/lib.linux-aarch64-cpython-310/Bio/Pathway/Rep/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype copying build/lib.linux-aarch64-cpython-310/Bio/phenotype/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype copying build/lib.linux-aarch64-cpython-310/Bio/phenotype/phen_micro.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype copying build/lib.linux-aarch64-cpython-310/Bio/phenotype/pm_fitting.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop/Controller.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop/EasyController.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop/FileParser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop/LargeFileParser.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop copying build/lib.linux-aarch64-cpython-310/Bio/PopGen/GenePop/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction copying build/lib.linux-aarch64-cpython-310/Bio/Restriction/PrintFormat.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction copying build/lib.linux-aarch64-cpython-310/Bio/Restriction/Restriction.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction copying build/lib.linux-aarch64-cpython-310/Bio/Restriction/Restriction_Dictionary.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction copying build/lib.linux-aarch64-cpython-310/Bio/Restriction/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Cla.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Des.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Dom.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Hie.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Raf.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/Residues.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP copying build/lib.linux-aarch64-cpython-310/Bio/SCOP/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlatIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/FastaIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_index.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_utils.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model/_base.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model/hit.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model/hsp.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/_model/query.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO/blast_tab.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/BlastIO/blast_xml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HHsuiteIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HHsuiteIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HHsuiteIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HHsuiteIO/hhsuite2_text.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HHsuiteIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/_base.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/hmmer2_text.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/hmmer3_domtab.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/hmmer3_tab.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/HmmerIO/hmmer3_text.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO/_base.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO/exonerate_cigar.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO/exonerate_text.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/InterproscanIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/InterproscanIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/InterproscanIO copying build/lib.linux-aarch64-cpython-310/Bio/SearchIO/InterproscanIO/interproscan_xml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/InterproscanIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/AbiIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/AceIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/FastaIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/GckIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/IgIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/InsdcIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/Interfaces.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/NibIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/PdbIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/PhdIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/PirIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/QualityIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/SeqXmlIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/SffIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/SnapGeneIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/SwissIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/TabIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/TwoBitIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/UniprotIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/XdnaIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/_index.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/_twoBitIO.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO copying build/lib.linux-aarch64-cpython-310/Bio/SeqIO/_twoBitIO.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/CheckSum.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/IsoelectricPoint.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/MeltingTemp.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/ProtParam.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/ProtParamData.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils copying build/lib.linux-aarch64-cpython-310/Bio/SeqUtils/lcc.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Ace.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Phd.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications/_Novoalign.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications/_bwa.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Sequencing/Applications/_samtools.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SVDSuperimposer copying build/lib.linux-aarch64-cpython-310/Bio/SVDSuperimposer/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SVDSuperimposer creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SwissProt copying build/lib.linux-aarch64-cpython-310/Bio/SwissProt/KeyWList.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SwissProt copying build/lib.linux-aarch64-cpython-310/Bio/SwissProt/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SwissProt creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/TogoWS copying build/lib.linux-aarch64-cpython-310/Bio/TogoWS/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/TogoWS creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/BaseTree.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/CDAO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/CDAOIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Consensus.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/NeXML.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/NeXMLIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Newick.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/NewickIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/NexusIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PhyloXML.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PhyloXMLIO.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/TreeConstruction.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/_cdao_owl.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/_io.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/_utils.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications/_Fasttree.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications/_Phyml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications/_Raxml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/Applications/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/_paml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/_parse_baseml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/_parse_codeml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/_parse_yn00.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/baseml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/chi2.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/codeml.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML copying build/lib.linux-aarch64-cpython-310/Bio/Phylo/PAML/yn00.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniGene copying build/lib.linux-aarch64-cpython-310/Bio/UniGene/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniGene creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniProt copying build/lib.linux-aarch64-cpython-310/Bio/UniProt/GOA.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniProt copying build/lib.linux-aarch64-cpython-310/Bio/UniProt/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniProt copying build/lib.linux-aarch64-cpython-310/Bio/cpairwise2module.c -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/py.typed -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio copying build/lib.linux-aarch64-cpython-310/Bio/cpairwise2.cpython-310-aarch64-linux-gnu.so -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio creating /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/BioSeq.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/BioSeqDatabase.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/DBUtils.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/Loader.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/__init__.py -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL copying build/lib.linux-aarch64-cpython-310/BioSQL/py.typed -> /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/File.py to File.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/LogisticRegression.py to LogisticRegression.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/MarkovModel.py to MarkovModel.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/MaxEntropy.py to MaxEntropy.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NaiveBayes.py to NaiveBayes.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Seq.py to Seq.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqFeature.py to SeqFeature.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqRecord.py to SeqRecord.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/_utils.py to _utils.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/bgzf.py to bgzf.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/kNN.py to kNN.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/pairwise2.py to pairwise2.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Affy/CelFile.py to CelFile.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Affy/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/AlignInfo.py to AlignInfo.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/a2m.py to a2m.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/analysis.py to analysis.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/bed.py to bed.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/bigbed.py to bigbed.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/bigmaf.py to bigmaf.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/bigpsl.py to bigpsl.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/chain.py to chain.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/clustal.py to clustal.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/emboss.py to emboss.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/exonerate.py to exonerate.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/fasta.py to fasta.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/hhr.py to hhr.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/interfaces.py to interfaces.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/maf.py to maf.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/mauve.py to mauve.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/msf.py to msf.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/nexus.py to nexus.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/phylip.py to phylip.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/psl.py to psl.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/sam.py to sam.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/stockholm.py to stockholm.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/tabular.py to tabular.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_ClustalOmega.py to _ClustalOmega.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Clustalw.py to _Clustalw.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Dialign.py to _Dialign.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_MSAProbs.py to _MSAProbs.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Mafft.py to _Mafft.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Muscle.py to _Muscle.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Prank.py to _Prank.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_Probcons.py to _Probcons.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/_TCoffee.py to _TCoffee.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/Applications/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/substitution_matrices/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/ClustalIO.py to ClustalIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/EmbossIO.py to EmbossIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/FastaIO.py to FastaIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/Interfaces.py to Interfaces.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/MafIO.py to MafIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/MauveIO.py to MauveIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/MsfIO.py to MsfIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/NexusIO.py to NexusIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/PhylipIO.py to PhylipIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/StockholmIO.py to StockholmIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/AlignIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Alphabet/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Application/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast/Applications.py to Applications.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast/NCBIWWW.py to NCBIWWW.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast/NCBIXML.py to NCBIXML.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast/Record.py to Record.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Blast/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/CAPS/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign/codonalignment.py to codonalignment.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/codonalign/codonseq.py to codonseq.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Compass/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data/CodonTable.py to CodonTable.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data/IUPACData.py to IUPACData.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data/PDBData.py to PDBData.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Data/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss/Applications.py to Applications.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss/Primer3.py to Primer3.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss/PrimerSearch.py to PrimerSearch.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Emboss/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/Parser.py to Parser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Entrez/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/Enzyme.py to Enzyme.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/Prodoc.py to Prodoc.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/Prosite.py to Prosite.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/ScanProsite.py to ScanProsite.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/ExPASy/cellosaurus.py to cellosaurus.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank/Record.py to Record.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank/Scanner.py to Scanner.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/GenBank/utils.py to utils.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Geo/Record.py to Record.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Geo/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/BasicChromosome.py to BasicChromosome.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/ColorSpiral.py to ColorSpiral.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/Comparative.py to Comparative.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/DisplayRepresentation.py to DisplayRepresentation.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/Distribution.py to Distribution.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/KGML_vis.py to KGML_vis.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py to _AbstractDrawer.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_CircularDrawer.py to _CircularDrawer.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Colors.py to _Colors.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_CrossLink.py to _CrossLink.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Diagram.py to _Diagram.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Feature.py to _Feature.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_FeatureSet.py to _FeatureSet.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Graph.py to _Graph.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_GraphSet.py to _GraphSet.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_LinearDrawer.py to _LinearDrawer.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/_Track.py to _Track.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Graphics/GenomeDiagram/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM/DynamicProgramming.py to DynamicProgramming.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM/MarkovModel.py to MarkovModel.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM/Trainer.py to Trainer.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM/Utilities.py to Utilities.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/HMM/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/REST.py to REST.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Compound/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Enzyme/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Gene/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/Map/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML/KGML_parser.py to KGML_parser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML/KGML_pathway.py to KGML_pathway.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/KEGG/KGML/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf/DefaultParser.py to DefaultParser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmtf/mmtfio.py to mmtfio.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/AbstractPropertyMap.py to AbstractPropertyMap.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Atom.py to Atom.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Chain.py to Chain.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/DSSP.py to DSSP.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Dice.py to Dice.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Entity.py to Entity.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/FragmentMapper.py to FragmentMapper.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/HSExposure.py to HSExposure.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/MMCIF2Dict.py to MMCIF2Dict.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/MMCIFParser.py to MMCIFParser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Model.py to Model.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/NACCESS.py to NACCESS.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/NeighborSearch.py to NeighborSearch.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PDBExceptions.py to PDBExceptions.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PDBIO.py to PDBIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PDBList.py to PDBList.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PDBParser.py to PDBParser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PICIO.py to PICIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/PSEA.py to PSEA.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Polypeptide.py to Polypeptide.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Residue.py to Residue.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/ResidueDepth.py to ResidueDepth.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/SASA.py to SASA.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/SCADIO.py to SCADIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Selection.py to Selection.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Structure.py to Structure.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/StructureAlignment.py to StructureAlignment.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/StructureBuilder.py to StructureBuilder.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/Superimposer.py to Superimposer.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/cealign.py to cealign.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/ic_data.py to ic_data.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/ic_rebuild.py to ic_rebuild.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/internal_coords.py to internal_coords.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/mmcifio.py to mmcifio.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/parse_pdb_header.py to parse_pdb_header.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/qcprot.py to qcprot.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/vectors.py to vectors.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Medline/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/alignace.py to alignace.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/clusterbuster.py to clusterbuster.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/mast.py to mast.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/matrix.py to matrix.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/meme.py to meme.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/minimal.py to minimal.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/pfm.py to pfm.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/thresholds.py to thresholds.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/transfac.py to transfac.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/xms.py to xms.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/applications/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/applications/_xxmotif.py to _xxmotif.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/jaspar/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/jaspar/db.py to db.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/Nexus.py to Nexus.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/Nodes.py to Nodes.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/StandardData.py to StandardData.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/Trees.py to Trees.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR/NOEtools.py to NOEtools.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/NMR/xpktools.py to xpktools.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep/Graph.py to Graph.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep/MultiGraph.py to MultiGraph.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Pathway/Rep/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype/phen_micro.py to phen_micro.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/phenotype/pm_fitting.py to pm_fitting.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop/Controller.py to Controller.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop/EasyController.py to EasyController.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop/FileParser.py to FileParser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop/LargeFileParser.py to LargeFileParser.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PopGen/GenePop/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction/PrintFormat.py to PrintFormat.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction/Restriction.py to Restriction.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction/Restriction_Dictionary.py to Restriction_Dictionary.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Restriction/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Cla.py to Cla.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Des.py to Des.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Dom.py to Dom.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Hie.py to Hie.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Raf.py to Raf.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/Residues.py to Residues.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SCOP/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlatIO.py to BlatIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/FastaIO.py to FastaIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_index.py to _index.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_utils.py to _utils.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model/_base.py to _base.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model/hit.py to hit.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model/hsp.py to hsp.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/_model/query.py to query.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO/blast_tab.py to blast_tab.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/BlastIO/blast_xml.py to blast_xml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HHsuiteIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HHsuiteIO/hhsuite2_text.py to hhsuite2_text.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/_base.py to _base.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/hmmer2_text.py to hmmer2_text.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/hmmer3_domtab.py to hmmer3_domtab.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/hmmer3_tab.py to hmmer3_tab.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/HmmerIO/hmmer3_text.py to hmmer3_text.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO/_base.py to _base.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO/exonerate_cigar.py to exonerate_cigar.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO/exonerate_text.py to exonerate_text.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py to exonerate_vulgar.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/InterproscanIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SearchIO/InterproscanIO/interproscan_xml.py to interproscan_xml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/AbiIO.py to AbiIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/AceIO.py to AceIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/FastaIO.py to FastaIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/GckIO.py to GckIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/IgIO.py to IgIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/InsdcIO.py to InsdcIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/Interfaces.py to Interfaces.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/NibIO.py to NibIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/PdbIO.py to PdbIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/PhdIO.py to PhdIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/PirIO.py to PirIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/QualityIO.py to QualityIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/SeqXmlIO.py to SeqXmlIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/SffIO.py to SffIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/SnapGeneIO.py to SnapGeneIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/SwissIO.py to SwissIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/TabIO.py to TabIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/TwoBitIO.py to TwoBitIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/UniprotIO.py to UniprotIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/XdnaIO.py to XdnaIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/_index.py to _index.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/CheckSum.py to CheckSum.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/IsoelectricPoint.py to IsoelectricPoint.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/MeltingTemp.py to MeltingTemp.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/ProtParam.py to ProtParam.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/ProtParamData.py to ProtParamData.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqUtils/lcc.py to lcc.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Ace.py to Ace.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Phd.py to Phd.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications/_Novoalign.py to _Novoalign.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications/_bwa.py to _bwa.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Sequencing/Applications/_samtools.py to _samtools.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SVDSuperimposer/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SwissProt/KeyWList.py to KeyWList.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SwissProt/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/TogoWS/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/BaseTree.py to BaseTree.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/CDAO.py to CDAO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/CDAOIO.py to CDAOIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Consensus.py to Consensus.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/NeXML.py to NeXML.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/NeXMLIO.py to NeXMLIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Newick.py to Newick.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/NewickIO.py to NewickIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/NexusIO.py to NexusIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PhyloXML.py to PhyloXML.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PhyloXMLIO.py to PhyloXMLIO.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/TreeConstruction.py to TreeConstruction.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/_cdao_owl.py to _cdao_owl.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/_io.py to _io.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/_utils.py to _utils.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications/_Fasttree.py to _Fasttree.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications/_Phyml.py to _Phyml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications/_Raxml.py to _Raxml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/Applications/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/_paml.py to _paml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/_parse_baseml.py to _parse_baseml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/_parse_codeml.py to _parse_codeml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/_parse_yn00.py to _parse_yn00.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/baseml.py to baseml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/chi2.py to chi2.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/codeml.py to codeml.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Phylo/PAML/yn00.py to yn00.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniGene/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniProt/GOA.py to GOA.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/UniProt/__init__.py to __init__.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL/BioSeq.py to BioSeq.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL/BioSeqDatabase.py to BioSeqDatabase.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL/DBUtils.py to DBUtils.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL/Loader.py to Loader.cpython-310.pyc byte-compiling /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/BioSQL/__init__.py to __init__.cpython-310.pyc writing byte-compilation script '/tmp/tmppgam8e8h.py' /usr/bin/python3 /tmp/tmppgam8e8h.py removing /tmp/tmppgam8e8h.py running install_egg_info running egg_info writing biopython.egg-info/PKG-INFO writing dependency_links to biopython.egg-info/dependency_links.txt writing requirements to biopython.egg-info/requires.txt writing top-level names to biopython.egg-info/top_level.txt reading manifest file 'biopython.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no previously-included files found matching 'Tests/Gck/DGVC_GCK.zip' warning: no previously-included files matching '*.pyc' found anywhere in distribution warning: no previously-included files matching '*.pyo' found anywhere in distribution warning: no previously-included files matching '*.py{}' found anywhere in distribution warning: no previously-included files matching '*.py-e' found anywhere in distribution warning: no previously-included files found matching 'Bio/Align/substitution_matrices/data/README.txt' adding license file 'LICENSE' adding license file 'LICENSE.rst' writing manifest file 'biopython.egg-info/SOURCES.txt' Copying biopython.egg-info to /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/biopython-1.83-py3.10.egg-info running install_scripts + rm -rfv /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/bin/__pycache__ + /usr/bin/find-debuginfo -j80 --strict-build-id -m -i --build-id-seed 1.83-1.an23 --unique-debug-suffix -1.83-1.an23.aarch64 --unique-debug-src-base python-biopython-1.83-1.an23.aarch64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/biopython-1.83 extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/_codonaligner.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Align/_pairwisealigner.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Cluster/_cluster.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/Nexus/cnexus.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/ccealign.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/PDB/kdtrees.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/cpairwise2.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/SeqIO/_twoBitIO.cpython-310-aarch64-linux-gnu.so extracting debug info from /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10/site-packages/Bio/motifs/_pwm.cpython-310-aarch64-linux-gnu.so original debug info size: 1016kB, size after compression: 952kB /usr/bin/sepdebugcrcfix: Updated 9 CRC32s, 0 CRC32s did match. 1246 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/anolis/brp-ldconfig + COMPRESS='zstd -f --rm -19 -T0' + COMPRESS_EXT=.zst + /usr/lib/rpm/brp-compress + /usr/lib/rpm/anolis/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/anolis/clean_perl + /usr/lib/rpm/anolis/check_elf_files + /usr/lib/rpm/anolis/brp-mangle-shebangs + /usr/lib/rpm/anolis/remove-info-dir + /usr/lib/rpm/anolis/check-desktop-files + /usr/lib/rpm/anolis/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib64/python3.10 using python3.10 Bytecompiling .py files below /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/lib/debug/usr/lib64/python3.10 using python3.10 + /usr/lib/rpm/anolis/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.UwPRPw + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/anolis/anolis-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -mbranch-protection=standard -fasynchronous-unwind-tables -fstack-clash-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/anolis/anolis-hardened-ld -specs=/usr/lib/rpm/anolis/anolis-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd biopython-1.83 + /usr/bin/python3 setup.py test running test /builddir/build/BUILD/biopython-1.83/Bio/__init__.py:138: BiopythonWarning: You may be importing Biopython from inside the source tree. This is bad practice and might lead to downstream issues. In particular, you might encounter ImportErrors due to missing compiled C extensions. We recommend that you try running your code from outside the source tree. If you are outside the source tree then you have a setup.py file in an unexpected directory: /builddir/build/BUILD/biopython-1.83 warnings.warn( test_Ace ... ok test_Affy ... ok test_AlignIO ... loading tests failed: Failed to import test module: test_AlignIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO.py", line 13, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_ClustalIO ... loading tests failed: Failed to import test module: test_AlignIO_ClustalIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_ClustalIO.py", line 10, in from Bio.AlignIO.ClustalIO import ClustalIterator File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_EmbossIO ... loading tests failed: Failed to import test module: test_AlignIO_EmbossIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_EmbossIO.py", line 11, in from Bio.AlignIO.EmbossIO import EmbossIterator File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_FastaIO ... loading tests failed: Failed to import test module: test_AlignIO_FastaIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_FastaIO.py", line 8, in from Bio.AlignIO import FastaIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_MauveIO ... loading tests failed: Failed to import test module: test_AlignIO_MauveIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_MauveIO.py", line 12, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_PhylipIO ... loading tests failed: Failed to import test module: test_AlignIO_PhylipIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_PhylipIO.py", line 11, in from Bio.AlignIO.PhylipIO import PhylipIterator File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignIO_convert ... loading tests failed: Failed to import test module: test_AlignIO_convert Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignIO_convert.py", line 10, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_AlignInfo ... loading tests failed: Failed to import test module: test_AlignInfo Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_AlignInfo.py", line 10, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_Alignment ... loading tests failed: Failed to import test module: test_Align_Alignment Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_Alignment.py", line 21, in from Bio import Align, SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_a2m ... loading tests failed: Failed to import test module: test_Align_a2m Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_a2m.py", line 11, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_bed ... loading tests failed: Failed to import test module: test_Align_bed Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_bed.py", line 12, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_bigbed ... loading tests failed: Failed to import test module: test_Align_bigbed Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_bigbed.py", line 13, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_bigmaf ... loading tests failed: Failed to import test module: test_Align_bigmaf Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_bigmaf.py", line 11, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_bigpsl ... loading tests failed: Failed to import test module: test_Align_bigpsl Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_bigpsl.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_chain ... loading tests failed: Failed to import test module: test_Align_chain Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_chain.py", line 10, in from Bio.Align import Alignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_clustal ... loading tests failed: Failed to import test module: test_Align_clustal Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_clustal.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_codonalign ... loading tests failed: Failed to import test module: test_Align_codonalign Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_codonalign.py", line 12, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_emboss ... loading tests failed: Failed to import test module: test_Align_emboss Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_emboss.py", line 11, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_exonerate ... loading tests failed: Failed to import test module: test_Align_exonerate Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_exonerate.py", line 12, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_fasta ... loading tests failed: Failed to import test module: test_Align_fasta Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_fasta.py", line 11, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_hhr ... loading tests failed: Failed to import test module: test_Align_hhr Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_hhr.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_maf ... loading tests failed: Failed to import test module: test_Align_maf Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_maf.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_mauve ... loading tests failed: Failed to import test module: test_Align_mauve Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_mauve.py", line 13, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_msf ... loading tests failed: Failed to import test module: test_Align_msf Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_msf.py", line 12, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_nexus ... loading tests failed: Failed to import test module: test_Align_nexus Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_nexus.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_phylip ... loading tests failed: Failed to import test module: test_Align_phylip Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_phylip.py", line 11, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_psl ... loading tests failed: Failed to import test module: test_Align_psl Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_psl.py", line 10, in from Bio.Align import Alignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_sam ... loading tests failed: Failed to import test module: test_Align_sam Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_sam.py", line 10, in from Bio.Align import Alignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_stockholm ... loading tests failed: Failed to import test module: test_Align_stockholm Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_stockholm.py", line 10, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Align_tabular ... loading tests failed: Failed to import test module: test_Align_tabular Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Align_tabular.py", line 11, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Application ... ok test_BWA_tool ... skipping. Install bwa and correctly set the file path to the program if you want to use it from Biopython test_BioSQL_MySQLdb ... loading tests failed: Failed to import test module: test_BioSQL_MySQLdb Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_MySQLdb.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_MySQLdb_online ... loading tests failed: Failed to import test module: test_BioSQL_MySQLdb_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_MySQLdb_online.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_mysql_connector ... loading tests failed: Failed to import test module: test_BioSQL_mysql_connector Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_mysql_connector.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_mysql_connector_online ... loading tests failed: Failed to import test module: test_BioSQL_mysql_connector_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_mysql_connector_online.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_psycopg2 ... loading tests failed: Failed to import test module: test_BioSQL_psycopg2 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_psycopg2.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_psycopg2_online ... loading tests failed: Failed to import test module: test_BioSQL_psycopg2_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_psycopg2_online.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_sqlite3 ... loading tests failed: Failed to import test module: test_BioSQL_sqlite3 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_sqlite3.py", line 10, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_BioSQL_sqlite3_online ... loading tests failed: Failed to import test module: test_BioSQL_sqlite3_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_BioSQL_sqlite3_online.py", line 10, in from common_BioSQL import * # noqa: F403 File "/builddir/build/BUILD/biopython-1.83/Tests/common_BioSQL.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Blast_Record ... loading tests failed: Failed to import test module: test_Blast_Record Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Blast_Record.py", line 9, in from Bio.Blast.Record import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/Blast/Record.py", line 26, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_CAPS ... loading tests failed: Failed to import test module: test_CAPS Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_CAPS.py", line 10, in from Bio import CAPS File "/builddir/build/BUILD/biopython-1.83/Bio/CAPS/__init__.py", line 16, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Chi2 ... /builddir/build/BUILD/biopython-1.83/Bio/Nexus/Nexus.py:2133: BiopythonWarning: Import of C module failed (cannot import name 'cnexus' from 'Bio.Nexus' (/builddir/build/BUILD/biopython-1.83/Bio/Nexus/__init__.py)). Falling back to slow Python implementation warnings.warn( loading tests failed: Failed to import test module: test_Chi2 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Chi2.py", line 9, in from Bio.Phylo.PAML import chi2 File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_ClustalOmega_tool ... loading tests failed: Failed to import test module: test_ClustalOmega_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_ClustalOmega_tool.py", line 17, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Clustalw_tool ... loading tests failed: Failed to import test module: test_Clustalw_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Clustalw_tool.py", line 19, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Cluster ... FAIL test_CodonTable ... ok test_ColorSpiral ... skipping. Error: Install reportlab if you want to use Bio.Graphics. test_Compass ... ok test_Consensus ... loading tests failed: Failed to import test module: test_Consensus Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Consensus.py", line 13, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Dialign_tool ... loading tests failed: Failed to import test module: test_Dialign_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Dialign_tool.py", line 18, in from Bio.Align.Applications import DialignCommandline File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_EMBL_unittest ... loading tests failed: Failed to import test module: test_EMBL_unittest Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_EMBL_unittest.py", line 12, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Emboss ... loading tests failed: Failed to import test module: test_Emboss Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Emboss.py", line 21, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_EmbossPhylipNew ... loading tests failed: Failed to import test module: test_EmbossPhylipNew Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_EmbossPhylipNew.py", line 14, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_EmbossPrimer ... ok test_Entrez ... ok test_Entrez_online ... loading tests failed: Failed to import test module: test_Entrez_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Entrez_online.py", line 16, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Entrez_parser ... ok test_Enzyme ... ok test_ExPASy ... skipping. internet not available test_Fasttree_tool ... loading tests failed: Failed to import test module: test_Fasttree_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Fasttree_tool.py", line 23, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_File ... ok test_GenBank ... loading tests failed: Failed to import test module: test_GenBank Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_GenBank.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_GenomeDiagram ... skipping. Error: Install reportlab if you want to use Bio.Graphics. test_GraphicsBitmaps ... skipping. Error: Install ReportLab if you want to use Bio.Graphics. test_GraphicsChromosome ... skipping. Error: Install reportlab if you want to use Bio.Graphics. test_GraphicsDistribution ... skipping. Install reportlab if you want to use Bio.Graphics. test_GraphicsGeneral ... skipping. Install reportlab if you want to use Bio.Graphics. test_HMMCasino ... ok test_HMMGeneral ... ok test_KEGG ... ok test_KEGG_online ... loading tests failed: Failed to import test module: test_KEGG_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_KEGG_online.py", line 18, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_KGML_graphics ... skipping. Error: Please install ReportLab if you want to use Bio.Graphics. You can find ReportLab at http://www.reportlab.com/software/opensource/ test_KGML_graphics_online ... skipping. Install reportlab if you want to use Bio.Graphics. test_KGML_nographics ... ok test_KeyWList ... ok test_LogisticRegression ... ok test_MSAProbs_tool ... loading tests failed: Failed to import test module: test_MSAProbs_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_MSAProbs_tool.py", line 17, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_MafIO_index ... loading tests failed: Failed to import test module: test_MafIO_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_MafIO_index.py", line 20, in from Bio.AlignIO.MafIO import MafIndex File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Mafft_tool ... loading tests failed: Failed to import test module: test_Mafft_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Mafft_tool.py", line 16, in from Bio.Align.Applications import MafftCommandline File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_MarkovModel ... ok test_Medline ... ok test_Muscle_tool ... loading tests failed: Failed to import test module: test_Muscle_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Muscle_tool.py", line 16, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_NCBIXML ... loading tests failed: Failed to import test module: test_NCBIXML Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_NCBIXML.py", line 9, in from Bio.Blast import NCBIXML File "/builddir/build/BUILD/biopython-1.83/Bio/Blast/NCBIXML.py", line 15, in from Bio.Blast import Record File "/builddir/build/BUILD/biopython-1.83/Bio/Blast/Record.py", line 26, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_NCBI_BLAST_tools ... skipping. Install the NCBI BLAST+ command line tools if you want to use the Bio.Blast.Applications wrapper. test_NCBI_qblast ... loading tests failed: Failed to import test module: test_NCBI_qblast Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_NCBI_qblast.py", line 37, in from Bio.Blast import NCBIXML File "/builddir/build/BUILD/biopython-1.83/Bio/Blast/NCBIXML.py", line 15, in from Bio.Blast import Record File "/builddir/build/BUILD/biopython-1.83/Bio/Blast/Record.py", line 26, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_NMR ... ok test_NaiveBayes ... ok test_Nexus ... loading tests failed: Failed to import test module: test_Nexus Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Nexus.py", line 20, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PAML_baseml ... loading tests failed: Failed to import test module: test_PAML_baseml Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PAML_baseml.py", line 11, in from Bio.Phylo.PAML import baseml File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PAML_codeml ... loading tests failed: Failed to import test module: test_PAML_codeml Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PAML_codeml.py", line 13, in from Bio.Phylo.PAML import codeml File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PAML_tools ... loading tests failed: Failed to import test module: test_PAML_tools Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PAML_tools.py", line 11, in from Bio.Phylo.PAML import codeml, baseml, yn00 File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PAML_yn00 ... loading tests failed: Failed to import test module: test_PAML_yn00 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PAML_yn00.py", line 11, in from Bio.Phylo.PAML import yn00 File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PDBList ... loading tests failed: Failed to import test module: test_PDBList Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDBList.py", line 16, in from Bio.PDB.PDBList import PDBList File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_CEAligner ... loading tests failed: Failed to import test module: test_PDB_CEAligner Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_CEAligner.py", line 20, in from Bio.PDB import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_DSSP ... loading tests failed: Failed to import test module: test_PDB_DSSP Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_DSSP.py", line 33, in from Bio.PDB import PDBParser, MMCIFParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Dice ... loading tests failed: Failed to import test module: test_PDB_Dice Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Dice.py", line 12, in from Bio.PDB import Dice File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Disordered ... loading tests failed: Failed to import test module: test_PDB_Disordered Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Disordered.py", line 18, in from Bio.PDB import PDBParser, PDBIO File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Exposure ... loading tests failed: Failed to import test module: test_PDB_Exposure Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Exposure.py", line 29, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_FragmentMapper ... loading tests failed: Failed to import test module: test_PDB_FragmentMapper Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_FragmentMapper.py", line 22, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_KDTree ... skipping. C module Bio.PDB.kdtrees not compiled test_PDB_MMCIF2Dict ... ok test_PDB_MMCIFIO ... loading tests failed: Failed to import test module: test_PDB_MMCIFIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_MMCIFIO.py", line 21, in from Bio.PDB import MMCIFParser, MMCIFIO, PDBParser, Select File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_MMCIFParser ... loading tests failed: Failed to import test module: test_PDB_MMCIFParser Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_MMCIFParser.py", line 37, in from Bio.PDB import PPBuilder, CaPPBuilder File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_NACCESS ... loading tests failed: Failed to import test module: test_PDB_NACCESS Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_NACCESS.py", line 32, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_PDBIO ... loading tests failed: Failed to import test module: test_PDB_PDBIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_PDBIO.py", line 22, in from Bio.PDB import PDBParser, PDBIO, Select File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_PDBParser ... loading tests failed: Failed to import test module: test_PDB_PDBParser Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_PDBParser.py", line 29, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_PSEA ... loading tests failed: Failed to import test module: test_PDB_PSEA Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_PSEA.py", line 15, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Polypeptide ... loading tests failed: Failed to import test module: test_PDB_Polypeptide Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Polypeptide.py", line 16, in from Bio.PDB import PDBParser, PPBuilder, CaPPBuilder File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_QCPSuperimposer ... loading tests failed: Failed to import test module: test_PDB_QCPSuperimposer Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_QCPSuperimposer.py", line 20, in from Bio.PDB import PDBParser, Selection File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_ResidueDepth ... loading tests failed: Failed to import test module: test_PDB_ResidueDepth Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_ResidueDepth.py", line 18, in from Bio.PDB import MMCIFParser, PDBParser, ResidueDepth File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_SASA ... loading tests failed: Failed to import test module: test_PDB_SASA Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_SASA.py", line 15, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_SMCRA ... loading tests failed: Failed to import test module: test_PDB_SMCRA Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_SMCRA.py", line 35, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Selection ... loading tests failed: Failed to import test module: test_PDB_Selection Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Selection.py", line 9, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_StructureAlignment ... loading tests failed: Failed to import test module: test_PDB_StructureAlignment Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_StructureAlignment.py", line 14, in from Bio.PDB import StructureAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_Superimposer ... loading tests failed: Failed to import test module: test_PDB_Superimposer Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_Superimposer.py", line 23, in from Bio.PDB import Superimposer, Selection File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_internal_coords ... loading tests failed: Failed to import test module: test_PDB_internal_coords Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_internal_coords.py", line 22, in from Bio.PDB.ic_rebuild import ( File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_parse_pdb_header ... loading tests failed: Failed to import test module: test_PDB_parse_pdb_header Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_parse_pdb_header.py", line 21, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PDB_vectors ... loading tests failed: Failed to import test module: test_PDB_vectors Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PDB_vectors.py", line 22, in from Bio.PDB import ( File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_PQR ... ok test_Pathway ... ok test_Phd ... loading tests failed: Failed to import test module: test_Phd Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phd.py", line 9, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Phylo ... loading tests failed: Failed to import test module: test_Phylo Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phylo.py", line 14, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PhyloXML ... loading tests failed: Failed to import test module: test_PhyloXML Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_PhyloXML.py", line 17, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Phylo_CDAO ... loading tests failed: Failed to import test module: test_Phylo_CDAO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phylo_CDAO.py", line 14, in import Bio.Phylo as bp File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Phylo_NeXML ... loading tests failed: Failed to import test module: test_Phylo_NeXML Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phylo_NeXML.py", line 15, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Phylo_matplotlib ... loading tests failed: Failed to import test module: test_Phylo_matplotlib Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phylo_matplotlib.py", line 11, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Phylo_networkx ... loading tests failed: Failed to import test module: test_Phylo_networkx Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Phylo_networkx.py", line 11, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_PopGen_GenePop ... skipping. Install GenePop if you want to use Bio.PopGen.GenePop. test_PopGen_GenePop_EasyController ... skipping. Install GenePop if you want to use Bio.PopGen.GenePop. test_PopGen_GenePop_nodepend ... ok test_Prank_tool ... loading tests failed: Failed to import test module: test_Prank_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Prank_tool.py", line 11, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Probcons_tool ... loading tests failed: Failed to import test module: test_Probcons_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Probcons_tool.py", line 14, in from Bio import AlignIO, SeqIO, MissingExternalDependencyError File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_ProtParam ... ok test_RCSBFormats ... loading tests failed: Failed to import test module: test_RCSBFormats Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_RCSBFormats.py", line 28, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_Restriction ... ok test_SCOP_Astral ... loading tests failed: Failed to import test module: test_SCOP_Astral Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Astral.py", line 10, in from Bio.SCOP import Astral, Scop File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Cla ... loading tests failed: Failed to import test module: test_SCOP_Cla Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Cla.py", line 12, in from Bio.SCOP import Cla File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Des ... loading tests failed: Failed to import test module: test_SCOP_Des Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Des.py", line 10, in from Bio.SCOP import Des File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Dom ... loading tests failed: Failed to import test module: test_SCOP_Dom Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Dom.py", line 13, in from Bio.SCOP import Dom File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Hie ... loading tests failed: Failed to import test module: test_SCOP_Hie Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Hie.py", line 10, in from Bio.SCOP import Hie File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Raf ... loading tests failed: Failed to import test module: test_SCOP_Raf Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Raf.py", line 10, in from Bio.SCOP import Raf File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_Residues ... ok test_SCOP_Scop ... loading tests failed: Failed to import test module: test_SCOP_Scop Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_Scop.py", line 14, in from Bio.SCOP import Scop, cmp_sccs, parse_domain File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SCOP_online ... loading tests failed: Failed to import test module: test_SCOP_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SCOP_online.py", line 10, in from Bio import SCOP File "/builddir/build/BUILD/biopython-1.83/Bio/SCOP/__init__.py", line 60, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SVDSuperimposer ... ok test_SearchIO_blast_tab ... loading tests failed: Failed to import test module: test_SearchIO_blast_tab Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blast_tab.py", line 11, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_blast_tab_index ... loading tests failed: Failed to import test module: test_SearchIO_blast_tab_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blast_tab_index.py", line 10, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_blast_xml ... loading tests failed: Failed to import test module: test_SearchIO_blast_xml Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blast_xml.py", line 13, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_blast_xml_index ... loading tests failed: Failed to import test module: test_SearchIO_blast_xml_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blast_xml_index.py", line 10, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_blat_psl ... loading tests failed: Failed to import test module: test_SearchIO_blat_psl Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blat_psl.py", line 11, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_blat_psl_index ... loading tests failed: Failed to import test module: test_SearchIO_blat_psl_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_blat_psl_index.py", line 11, in from search_tests_common import CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_exonerate ... loading tests failed: Failed to import test module: test_SearchIO_exonerate Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_exonerate.py", line 11, in from Bio.SearchIO import parse, read File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_exonerate_text_index ... loading tests failed: Failed to import test module: test_SearchIO_exonerate_text_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_exonerate_text_index.py", line 11, in from search_tests_common import CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_exonerate_vulgar_index ... loading tests failed: Failed to import test module: test_SearchIO_exonerate_vulgar_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_exonerate_vulgar_index.py", line 11, in from search_tests_common import CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_fasta_m10 ... loading tests failed: Failed to import test module: test_SearchIO_fasta_m10 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_fasta_m10.py", line 11, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_fasta_m10_index ... loading tests failed: Failed to import test module: test_SearchIO_fasta_m10_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_fasta_m10_index.py", line 11, in from search_tests_common import CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hhsuite2_text ... loading tests failed: Failed to import test module: test_SearchIO_hhsuite2_text Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hhsuite2_text.py", line 12, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer2_text ... loading tests failed: Failed to import test module: test_SearchIO_hmmer2_text Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer2_text.py", line 12, in from Bio.SearchIO import parse, read File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer2_text_index ... loading tests failed: Failed to import test module: test_SearchIO_hmmer2_text_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer2_text_index.py", line 11, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_domtab ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_domtab Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_domtab.py", line 12, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_domtab_index ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_domtab_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_domtab_index.py", line 11, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_tab ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_tab Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_tab.py", line 12, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_tab_index ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_tab_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_tab_index.py", line 11, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_text ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_text Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_text.py", line 12, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_hmmer3_text_index ... loading tests failed: Failed to import test module: test_SearchIO_hmmer3_text_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_hmmer3_text_index.py", line 10, in from search_tests_common import CheckRaw, CheckIndex File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_interproscan_xml ... loading tests failed: Failed to import test module: test_SearchIO_interproscan_xml Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_interproscan_xml.py", line 10, in from Bio.SearchIO import parse File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_model ... loading tests failed: Failed to import test module: test_SearchIO_model Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_model.py", line 19, in from search_tests_common import SearchTestBaseClass File "/builddir/build/BUILD/biopython-1.83/Tests/search_tests_common.py", line 19, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SearchIO_write ... loading tests failed: Failed to import test module: test_SearchIO_write Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SearchIO_write.py", line 11, in from Bio import SearchIO File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/__init__.py", line 197, in from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/__init__.py", line 47, in from .query import QueryResult File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/query.py", line 15, in from .hit import Hit File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hit.py", line 14, in from .hsp import HSP File "/builddir/build/BUILD/biopython-1.83/Bio/SearchIO/_model/hsp.py", line 12, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqFeature ... loading tests failed: Failed to import test module: test_SeqFeature Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqFeature.py", line 16, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO ... loading tests failed: Failed to import test module: test_SeqIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO.py", line 14, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_AbiIO ... loading tests failed: Failed to import test module: test_SeqIO_AbiIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_AbiIO.py", line 11, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_FastaIO ... loading tests failed: Failed to import test module: test_SeqIO_FastaIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_FastaIO.py", line 11, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_Gck ... loading tests failed: Failed to import test module: test_SeqIO_Gck Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_Gck.py", line 12, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_Insdc ... loading tests failed: Failed to import test module: test_SeqIO_Insdc Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_Insdc.py", line 12, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_NibIO ... loading tests failed: Failed to import test module: test_SeqIO_NibIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_NibIO.py", line 6, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_PdbIO ... loading tests failed: Failed to import test module: test_SeqIO_PdbIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_PdbIO.py", line 23, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_QualityIO ... loading tests failed: Failed to import test module: test_SeqIO_QualityIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_QualityIO.py", line 15, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_SeqXML ... loading tests failed: Failed to import test module: test_SeqIO_SeqXML Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_SeqXML.py", line 10, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_SnapGene ... loading tests failed: Failed to import test module: test_SeqIO_SnapGene Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_SnapGene.py", line 13, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_TwoBitIO ... loading tests failed: Failed to import test module: test_SeqIO_TwoBitIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_TwoBitIO.py", line 4, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_Xdna ... loading tests failed: Failed to import test module: test_SeqIO_Xdna Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_Xdna.py", line 13, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_features ... loading tests failed: Failed to import test module: test_SeqIO_features Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_features.py", line 17, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_index ... loading tests failed: Failed to import test module: test_SeqIO_index Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_index.py", line 24, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_online ... loading tests failed: Failed to import test module: test_SeqIO_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_online.py", line 22, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqIO_write ... loading tests failed: Failed to import test module: test_SeqIO_write Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqIO_write.py", line 13, in from Bio import AlignIO File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqRecord ... loading tests failed: Failed to import test module: test_SeqRecord Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqRecord.py", line 17, in from Bio import BiopythonDeprecationWarning, SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SeqUtils ... loading tests failed: Failed to import test module: test_SeqUtils Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SeqUtils.py", line 10, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Seq_objs ... loading tests failed: Failed to import test module: test_Seq_objs Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Seq_objs.py", line 11, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SffIO ... loading tests failed: Failed to import test module: test_SffIO Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SffIO.py", line 13, in from Bio.SeqIO.SffIO import _sff_find_roche_index, _sff_read_roche_index File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_SwissProt ... loading tests failed: Failed to import test module: test_SwissProt Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_SwissProt.py", line 10, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_TCoffee_tool ... loading tests failed: Failed to import test module: test_TCoffee_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_TCoffee_tool.py", line 12, in from Bio import AlignIO, SeqIO, MissingExternalDependencyError File "/builddir/build/BUILD/biopython-1.83/Bio/AlignIO/__init__.py", line 140, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_TogoWS ... loading tests failed: Failed to import test module: test_TogoWS Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_TogoWS.py", line 18, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_TreeConstruction ... loading tests failed: Failed to import test module: test_TreeConstruction Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_TreeConstruction.py", line 13, in from Bio import Align File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_Tutorial ... FAIL test_UniGene ... ok test_UniProt_GOA ... ok test_Uniprot ... loading tests failed: Failed to import test module: test_Uniprot Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_Uniprot.py", line 11, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_XXmotif_tool ... loading tests failed: Failed to import test module: test_XXmotif_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_XXmotif_tool.py", line 18, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_align ... loading tests failed: Failed to import test module: test_align Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_align.py", line 28, in from Bio.Align import AlignInfo File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_align_substitution_matrices ... loading tests failed: Failed to import test module: test_align_substitution_matrices Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_align_substitution_matrices.py", line 23, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_bgzf ... ok test_cellosaurus ... ok test_codonalign ... loading tests failed: Failed to import test module: test_codonalign Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_codonalign.py", line 13, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_geo ... ok test_kNN ... ok test_mmtf ... loading tests failed: Failed to import test module: test_mmtf Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_mmtf.py", line 15, in from Bio.PDB import PDBParser, Select File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_mmtf_online ... loading tests failed: Failed to import test module: test_mmtf_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_mmtf_online.py", line 13, in from Bio.PDB.mmtf import MMTFParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' test_motifs ... loading tests failed: Failed to import test module: test_motifs Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_motifs.py", line 25, in from Bio import motifs File "/builddir/build/BUILD/biopython-1.83/Bio/motifs/__init__.py", line 32, in from Bio.Align import Alignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_motifs_online ... loading tests failed: Failed to import test module: test_motifs_online Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_motifs_online.py", line 13, in from Bio import motifs File "/builddir/build/BUILD/biopython-1.83/Bio/motifs/__init__.py", line 32, in from Bio.Align import Alignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_pairwise2 ... loading tests failed: Failed to import test module: test_pairwise2 Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_pairwise2.py", line 15, in from pairwise2_testCases import * # noqa: F401, F403 File "/builddir/build/BUILD/biopython-1.83/Tests/pairwise2_testCases.py", line 19, in from Bio import pairwise2 File "/builddir/build/BUILD/biopython-1.83/Bio/pairwise2.py", line 276, in from Bio.Align import substitution_matrices File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_pairwise2_no_C ... loading tests failed: Failed to import test module: test_pairwise2_no_C Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_pairwise2_no_C.py", line 15, in from pairwise2_testCases import * # noqa: F401, F403 File "/builddir/build/BUILD/biopython-1.83/Tests/pairwise2_testCases.py", line 19, in from Bio import pairwise2 File "/builddir/build/BUILD/biopython-1.83/Bio/pairwise2.py", line 276, in from Bio.Align import substitution_matrices File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_pairwise_aligner ... loading tests failed: Failed to import test module: test_pairwise_aligner Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_pairwise_aligner.py", line 21, in from Bio import Align, SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_pairwise_alignment_map ... loading tests failed: Failed to import test module: test_pairwise_alignment_map Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_pairwise_alignment_map.py", line 23, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_phenotype ... ok test_phenotype_fit ... skipping. Install SciPy if you want to use Bio.phenotype fit functionality. test_phyml_tool ... loading tests failed: Failed to import test module: test_phyml_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_phyml_tool.py", line 15, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_prodoc ... ok test_prosite ... ok test_raxml_tool ... loading tests failed: Failed to import test module: test_raxml_tool Traceback (most recent call last): File "/usr/lib64/python3.10/unittest/loader.py", line 154, in loadTestsFromName module = __import__(module_name) File "/builddir/build/BUILD/biopython-1.83/Tests/test_raxml_tool.py", line 12, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) test_samtools_tool ... skipping. Install samtools and correctly set the file path to the program if you want to use it from Biopython test_seq ... ok test_translate ... ok Bio docstring test ... ok Bio.Affy docstring test ... ok Bio.Affy.CelFile docstring test ... ok Bio.Align docstring test ... FAIL, ImportError Bio.Align.AlignInfo docstring test ... FAIL, ImportError Bio.Align.Applications docstring test ... FAIL, ImportError Bio.Align.Applications._ClustalOmega docstring test ... FAIL, ImportError Bio.Align.Applications._Clustalw docstring test ... FAIL, ImportError Bio.Align.Applications._Dialign docstring test ... FAIL, ImportError Bio.Align.Applications._MSAProbs docstring test ... FAIL, ImportError Bio.Align.Applications._Mafft docstring test ... FAIL, ImportError Bio.Align.Applications._Muscle docstring test ... FAIL, ImportError Bio.Align.Applications._Prank docstring test ... FAIL, ImportError Bio.Align.Applications._Probcons docstring test ... FAIL, ImportError Bio.Align.Applications._TCoffee docstring test ... FAIL, ImportError Bio.Align.a2m docstring test ... FAIL, ImportError Bio.Align.analysis docstring test ... FAIL, ImportError Bio.Align.bed docstring test ... FAIL, ImportError Bio.Align.bigbed docstring test ... FAIL, ImportError Bio.Align.bigmaf docstring test ... FAIL, ImportError Bio.Align.bigpsl docstring test ... FAIL, ImportError Bio.Align.chain docstring test ... FAIL, ImportError Bio.Align.clustal docstring test ... FAIL, ImportError Bio.Align.emboss docstring test ... FAIL, ImportError Bio.Align.exonerate docstring test ... FAIL, ImportError Bio.Align.fasta docstring test ... FAIL, ImportError Bio.Align.hhr docstring test ... FAIL, ImportError Bio.Align.interfaces docstring test ... FAIL, ImportError Bio.Align.maf docstring test ... FAIL, ImportError Bio.Align.mauve docstring test ... FAIL, ImportError Bio.Align.msf docstring test ... FAIL, ImportError Bio.Align.nexus docstring test ... FAIL, ImportError Bio.Align.phylip docstring test ... FAIL, ImportError Bio.Align.psl docstring test ... FAIL, ImportError Bio.Align.sam docstring test ... FAIL, ImportError Bio.Align.stockholm docstring test ... FAIL, ImportError Bio.Align.substitution_matrices docstring test ... FAIL, ImportError Bio.Align.tabular docstring test ... FAIL, ImportError Bio.AlignIO docstring test ... FAIL, ImportError Bio.AlignIO.ClustalIO docstring test ... FAIL, ImportError Bio.AlignIO.EmbossIO docstring test ... FAIL, ImportError Bio.AlignIO.FastaIO docstring test ... FAIL, ImportError Bio.AlignIO.Interfaces docstring test ... FAIL, ImportError Bio.AlignIO.MafIO docstring test ... FAIL, ImportError Bio.AlignIO.MauveIO docstring test ... FAIL, ImportError Bio.AlignIO.MsfIO docstring test ... FAIL, ImportError Bio.AlignIO.NexusIO docstring test ... FAIL, ImportError Bio.AlignIO.PhylipIO docstring test ... FAIL, ImportError Bio.AlignIO.StockholmIO docstring test ... FAIL, ImportError Bio.Application docstring test ... ok Bio.Blast docstring test ... ok Bio.Blast.Applications docstring test ... ok Bio.Blast.NCBIWWW docstring test ... ok Bio.Blast.NCBIXML docstring test ... FAIL, ImportError Bio.Blast.Record docstring test ... FAIL, ImportError Bio.CAPS docstring test ... FAIL, ImportError Bio.Cluster docstring test ... FAIL, ImportError Bio.Compass docstring test ... ok Bio.Data docstring test ... ok Bio.Data.CodonTable docstring test ... ok Bio.Data.IUPACData docstring test ... ok Bio.Data.PDBData docstring test ... ok Bio.Emboss docstring test ... ok Bio.Emboss.Applications docstring test ... ok Bio.Emboss.Primer3 docstring test ... ok Bio.Emboss.PrimerSearch docstring test ... ok Bio.Entrez docstring test ... FAIL Bio.Entrez.Parser docstring test ... ok Bio.ExPASy docstring test ... FAIL Bio.ExPASy.Enzyme docstring test ... ok Bio.ExPASy.Prodoc docstring test ... ok Bio.ExPASy.Prosite docstring test ... ok Bio.ExPASy.ScanProsite docstring test ... ok Bio.ExPASy.cellosaurus docstring test ... FAIL Bio.File docstring test ... ok Bio.GenBank docstring test ... ok Bio.GenBank.Record docstring test ... ok Bio.GenBank.Scanner docstring test ... ok Bio.GenBank.utils docstring test ... ok Bio.Geo docstring test ... ok Bio.Geo.Record docstring test ... ok Bio.Graphics docstring test ... skipped, missing Python dependency Bio.Graphics.BasicChromosome docstring test ... skipped, missing Python dependency Bio.Graphics.ColorSpiral docstring test ... skipped, missing Python dependency Bio.Graphics.Comparative docstring test ... skipped, missing Python dependency Bio.Graphics.DisplayRepresentation docstring test ... skipped, missing Python dependency Bio.Graphics.Distribution docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._AbstractDrawer docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._CircularDrawer docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._Colors docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._CrossLink docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._Diagram docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._Feature docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._FeatureSet docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._Graph docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._GraphSet docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._LinearDrawer docstring test ... skipped, missing Python dependency Bio.Graphics.GenomeDiagram._Track docstring test ... skipped, missing Python dependency Bio.Graphics.KGML_vis docstring test ... skipped, missing Python dependency Bio.HMM docstring test ... ok Bio.HMM.DynamicProgramming docstring test ... ok Bio.HMM.MarkovModel docstring test ... ok Bio.HMM.Trainer docstring test ... ok Bio.HMM.Utilities docstring test ... ok Bio.KEGG docstring test ... ok Bio.KEGG.Compound docstring test ... ok Bio.KEGG.Enzyme docstring test ... ok Bio.KEGG.Gene docstring test ... ok Bio.KEGG.KGML docstring test ... ok Bio.KEGG.KGML.KGML_parser docstring test ... ok Bio.KEGG.KGML.KGML_pathway docstring test ... ok Bio.KEGG.Map docstring test ... ok Bio.KEGG.REST docstring test ... ok Bio.LogisticRegression docstring test ... ok Bio.MarkovModel docstring test ... ok Bio.MaxEntropy docstring test ... ok Bio.Medline docstring test ... ok Bio.NMR docstring test ... ok Bio.NMR.NOEtools docstring test ... ok Bio.NMR.xpktools docstring test ... ok Bio.NaiveBayes docstring test ... ok Bio.Nexus docstring test ... ok Bio.Nexus.Nexus docstring test ... ok Bio.Nexus.Nodes docstring test ... ok Bio.Nexus.StandardData docstring test ... ok Bio.Nexus.Trees docstring test ... ok Bio.PDB docstring test ... FAIL, ImportError Bio.PDB.AbstractPropertyMap docstring test ... FAIL, ImportError Bio.PDB.Atom docstring test ... ok Bio.PDB.Chain docstring test ... ok Bio.PDB.DSSP docstring test ... FAIL, ImportError Bio.PDB.Dice docstring test ... FAIL, ImportError Bio.PDB.Entity docstring test ... ok Bio.PDB.FragmentMapper docstring test ... FAIL, ImportError Bio.PDB.HSExposure docstring test ... FAIL, ImportError Bio.PDB.MMCIF2Dict docstring test ... ok Bio.PDB.MMCIFParser docstring test ... ok Bio.PDB.Model docstring test ... ok Bio.PDB.NACCESS docstring test ... FAIL, ImportError Bio.PDB.NeighborSearch docstring test ... FAIL, ImportError Bio.PDB.PDBExceptions docstring test ... ok Bio.PDB.PDBIO docstring test ... FAIL Bio.PDB.PDBList docstring test ... ok Bio.PDB.PDBParser docstring test ... ok Bio.PDB.PICIO docstring test ... FAIL, ImportError Bio.PDB.PSEA docstring test ... FAIL, ImportError Bio.PDB.Polypeptide docstring test ... ok Bio.PDB.Residue docstring test ... ok Bio.PDB.ResidueDepth docstring test ... FAIL, ImportError Bio.PDB.SASA docstring test ... FAIL, ImportError Bio.PDB.SCADIO docstring test ... FAIL, ImportError Bio.PDB.Selection docstring test ... ok Bio.PDB.Structure docstring test ... ok Bio.PDB.StructureAlignment docstring test ... FAIL, ImportError Bio.PDB.StructureBuilder docstring test ... ok Bio.PDB.Superimposer docstring test ... ok Bio.PDB.cealign docstring test ... FAIL, ImportError Bio.PDB.ic_data docstring test ... ok Bio.PDB.ic_rebuild docstring test ... FAIL, ImportError Bio.PDB.internal_coords docstring test ... ok Bio.PDB.mmcifio docstring test ... FAIL Bio.PDB.mmtf docstring test ... FAIL, ImportError Bio.PDB.mmtf.DefaultParser docstring test ... FAIL, ImportError Bio.PDB.mmtf.mmtfio docstring test ... FAIL, ImportError Bio.PDB.parse_pdb_header docstring test ... ok Bio.PDB.qcprot docstring test ... FAIL, ImportError Bio.PDB.vectors docstring test ... ok Bio.Pathway docstring test ... ok Bio.Pathway.Rep docstring test ... ok Bio.Pathway.Rep.Graph docstring test ... ok Bio.Pathway.Rep.MultiGraph docstring test ... ok Bio.Phylo docstring test ... FAIL, ImportError Bio.Phylo.Applications docstring test ... FAIL, ImportError Bio.Phylo.Applications._Fasttree docstring test ... FAIL, ImportError Bio.Phylo.Applications._Phyml docstring test ... FAIL, ImportError Bio.Phylo.Applications._Raxml docstring test ... FAIL, ImportError Bio.Phylo.BaseTree docstring test ... FAIL Bio.Phylo.CDAO docstring test ... FAIL, ImportError Bio.Phylo.CDAOIO docstring test ... FAIL, ImportError Bio.Phylo.Consensus docstring test ... FAIL, ImportError Bio.Phylo.NeXML docstring test ... FAIL, ImportError Bio.Phylo.NeXMLIO docstring test ... FAIL, ImportError Bio.Phylo.Newick docstring test ... ok Bio.Phylo.NewickIO docstring test ... ok Bio.Phylo.NexusIO docstring test ... ok Bio.Phylo.PAML docstring test ... FAIL, ImportError Bio.Phylo.PAML._paml docstring test ... FAIL, ImportError Bio.Phylo.PAML._parse_baseml docstring test ... FAIL, ImportError Bio.Phylo.PAML._parse_codeml docstring test ... FAIL, ImportError Bio.Phylo.PAML._parse_yn00 docstring test ... FAIL, ImportError Bio.Phylo.PAML.baseml docstring test ... FAIL, ImportError Bio.Phylo.PAML.chi2 docstring test ... FAIL, ImportError Bio.Phylo.PAML.codeml docstring test ... FAIL, ImportError Bio.Phylo.PAML.yn00 docstring test ... FAIL, ImportError Bio.Phylo.PhyloXML docstring test ... FAIL, ImportError Bio.Phylo.PhyloXMLIO docstring test ... FAIL, ImportError Bio.Phylo.TreeConstruction docstring test ... FAIL, ImportError Bio.Phylo._cdao_owl docstring test ... FAIL, ImportError Bio.Phylo._io docstring test ... FAIL, ImportError Bio.Phylo._utils docstring test ... FAIL, ImportError Bio.PopGen docstring test ... ok Bio.PopGen.GenePop docstring test ... ok Bio.PopGen.GenePop.Controller docstring test ... ok Bio.PopGen.GenePop.EasyController docstring test ... ok Bio.PopGen.GenePop.FileParser docstring test ... ok Bio.PopGen.GenePop.LargeFileParser docstring test ... ok Bio.Restriction docstring test ... ok Bio.Restriction.PrintFormat docstring test ... ok Bio.Restriction.Restriction docstring test ... ok Bio.Restriction.Restriction_Dictionary docstring test ... ok Bio.SCOP docstring test ... FAIL, ImportError Bio.SCOP.Cla docstring test ... ok Bio.SCOP.Des docstring test ... ok Bio.SCOP.Dom docstring test ... FAIL, ImportError Bio.SCOP.Hie docstring test ... ok Bio.SCOP.Raf docstring test ... FAIL, ImportError Bio.SCOP.Residues docstring test ... ok Bio.SVDSuperimposer docstring test ... ok Bio.SearchIO docstring test ... FAIL, ImportError Bio.SearchIO.BlastIO docstring test ... FAIL, ImportError Bio.SearchIO.BlastIO.blast_tab docstring test ... FAIL, ImportError Bio.SearchIO.BlastIO.blast_xml docstring test ... FAIL, ImportError Bio.SearchIO.BlatIO docstring test ... FAIL, ImportError Bio.SearchIO.ExonerateIO docstring test ... FAIL, ImportError Bio.SearchIO.ExonerateIO._base docstring test ... FAIL, ImportError Bio.SearchIO.ExonerateIO.exonerate_cigar docstring test ... FAIL, ImportError Bio.SearchIO.ExonerateIO.exonerate_text docstring test ... FAIL, ImportError Bio.SearchIO.ExonerateIO.exonerate_vulgar docstring test ... FAIL, ImportError Bio.SearchIO.FastaIO docstring test ... FAIL, ImportError Bio.SearchIO.HHsuiteIO docstring test ... FAIL, ImportError Bio.SearchIO.HHsuiteIO.hhsuite2_text docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO._base docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO.hmmer2_text docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO.hmmer3_domtab docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO.hmmer3_tab docstring test ... FAIL, ImportError Bio.SearchIO.HmmerIO.hmmer3_text docstring test ... FAIL, ImportError Bio.SearchIO.InterproscanIO docstring test ... FAIL, ImportError Bio.SearchIO.InterproscanIO.interproscan_xml docstring test ... FAIL, ImportError Bio.SearchIO._index docstring test ... FAIL, ImportError Bio.SearchIO._model docstring test ... FAIL, ImportError Bio.SearchIO._model._base docstring test ... ok Bio.SearchIO._model.hit docstring test ... FAIL, ImportError Bio.SearchIO._model.hsp docstring test ... FAIL, ImportError Bio.SearchIO._model.query docstring test ... FAIL, ImportError Bio.SearchIO._utils docstring test ... ok Bio.Seq docstring test ... ok Bio.SeqFeature docstring test ... FAIL Bio.SeqIO docstring test ... FAIL, ImportError Bio.SeqIO.AbiIO docstring test ... FAIL, ImportError Bio.SeqIO.AceIO docstring test ... FAIL, ImportError Bio.SeqIO.FastaIO docstring test ... FAIL, ImportError Bio.SeqIO.GckIO docstring test ... FAIL, ImportError Bio.SeqIO.IgIO docstring test ... FAIL, ImportError Bio.SeqIO.InsdcIO docstring test ... FAIL, ImportError Bio.SeqIO.Interfaces docstring test ... FAIL, ImportError Bio.SeqIO.NibIO docstring test ... FAIL, ImportError Bio.SeqIO.PdbIO docstring test ... FAIL, ImportError Bio.SeqIO.PhdIO docstring test ... FAIL, ImportError Bio.SeqIO.PirIO docstring test ... FAIL, ImportError Bio.SeqIO.QualityIO docstring test ... FAIL, ImportError Bio.SeqIO.SeqXmlIO docstring test ... FAIL, ImportError Bio.SeqIO.SffIO docstring test ... FAIL, ImportError Bio.SeqIO.SnapGeneIO docstring test ... FAIL, ImportError Bio.SeqIO.SwissIO docstring test ... FAIL, ImportError Bio.SeqIO.TabIO docstring test ... FAIL, ImportError Bio.SeqIO.TwoBitIO docstring test ... FAIL, ImportError Bio.SeqIO.UniprotIO docstring test ... FAIL, ImportError Bio.SeqIO.XdnaIO docstring test ... FAIL, ImportError Bio.SeqIO._index docstring test ... FAIL, ImportError Bio.SeqRecord docstring test ... FAIL Bio.SeqUtils docstring test ... ok Bio.SeqUtils.CheckSum docstring test ... ok Bio.SeqUtils.IsoelectricPoint docstring test ... ok Bio.SeqUtils.MeltingTemp docstring test ... ok Bio.SeqUtils.ProtParam docstring test ... ok Bio.SeqUtils.ProtParamData docstring test ... ok Bio.SeqUtils.lcc docstring test ... ok Bio.Sequencing docstring test ... ok Bio.Sequencing.Ace docstring test ... ok Bio.Sequencing.Applications docstring test ... ok Bio.Sequencing.Applications._Novoalign docstring test ... ok Bio.Sequencing.Applications._bwa docstring test ... ok Bio.Sequencing.Applications._samtools docstring test ... ok Bio.Sequencing.Phd docstring test ... ok Bio.SwissProt docstring test ... ok Bio.SwissProt.KeyWList docstring test ... ok Bio.TogoWS docstring test ... FAIL Bio.UniGene docstring test ... ok Bio.UniProt docstring test ... ok Bio.UniProt.GOA docstring test ... ok Bio._utils docstring test ... ok Bio.bgzf docstring test ... FAIL Bio.codonalign docstring test ... FAIL, ImportError Bio.codonalign.codonalignment docstring test ... FAIL, ImportError Bio.codonalign.codonseq docstring test ... ok Bio.kNN docstring test ... ok Bio.motifs docstring test ... FAIL, ImportError Bio.motifs.alignace docstring test ... FAIL, ImportError Bio.motifs.applications docstring test ... FAIL, ImportError Bio.motifs.applications._xxmotif docstring test ... FAIL, ImportError Bio.motifs.clusterbuster docstring test ... FAIL, ImportError Bio.motifs.jaspar docstring test ... FAIL, ImportError Bio.motifs.jaspar.db docstring test ... FAIL, ImportError Bio.motifs.mast docstring test ... FAIL, ImportError Bio.motifs.matrix docstring test ... FAIL, ImportError Bio.motifs.meme docstring test ... FAIL, ImportError Bio.motifs.minimal docstring test ... FAIL, ImportError Bio.motifs.pfm docstring test ... FAIL, ImportError Bio.motifs.thresholds docstring test ... FAIL, ImportError Bio.motifs.transfac docstring test ... FAIL, ImportError Bio.motifs.xms docstring test ... FAIL, ImportError Bio.pairwise2 docstring test ... FAIL, ImportError Bio.phenotype docstring test ... ok Bio.phenotype.phen_micro docstring test ... ok Bio.phenotype.pm_fitting docstring test ... skipped, missing Python dependency BioSQL docstring test ... ok BioSQL.BioSeq docstring test ... ok BioSQL.BioSeqDatabase docstring test ... ok BioSQL.DBUtils docstring test ... ok BioSQL.Loader docstring test ... ok ====================================================================== ERROR: test_clusterdistance (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 985, in test_clusterdistance from Bio.Cluster import clusterdistance File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_clusterdistance_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 723, in test_clusterdistance_arguments from Bio.Cluster._cluster import clusterdistance File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_distancematrix_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2656, in test_distancematrix_arguments from Bio.Cluster._cluster import distancematrix File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_distancematrix_kmedoids (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2741, in test_distancematrix_kmedoids from Bio.Cluster import distancematrix, kmedoids File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_kcluster (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 544, in test_kcluster from Bio.Cluster import kcluster, clustercentroids File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_kcluster_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 371, in test_kcluster_arguments from Bio.Cluster._cluster import kcluster, clustercentroids File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_kmedoids_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2721, in test_kmedoids_arguments from Bio.Cluster._cluster import distancematrix, kmedoids File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_mask_parse (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 172, in test_mask_parse from Bio.Cluster import treecluster File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_matrix_parse (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 24, in test_matrix_parse from Bio.Cluster import treecluster File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_pca (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2987, in test_pca from Bio.Cluster import pca File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_pca_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2911, in test_pca_arguments from Bio.Cluster._cluster import pca File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_somcluster (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2544, in test_somcluster from Bio.Cluster import somcluster File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_somcluster_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 2213, in test_somcluster_arguments from Bio.Cluster._cluster import somcluster File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_tree (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 1289, in test_tree from Bio.Cluster import Node, Tree File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_tree_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 1261, in test_tree_arguments from Bio.Cluster._cluster import Node, Tree File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_treecluster (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 1335, in test_treecluster from Bio.Cluster import treecluster File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_treecluster_arguments (test_Cluster.TestCluster) ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Cluster.py", line 1172, in test_treecluster_arguments from Bio.Cluster._cluster import treecluster, Tree File "/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py", line 27, in from . import _cluster # type: ignore ImportError: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== ERROR: test_doctests (test_Tutorial.TutorialTestCase) Run tutorial doctests. ---------------------------------------------------------------------- Traceback (most recent call last): File "/builddir/build/BUILD/biopython-1.83/Tests/test_Tutorial.py", line 244, in test_doctests raise ValueError( ValueError: 114 Tutorial doctests failed: test_chapter_align_line_00019, test_chapter_align_line_01125, test_chapter_align_line_01248, test_chapter_align_line_01367, test_chapter_align_line_01558, test_chapter_align_line_01678, test_chapter_align_line_01811, test_chapter_align_line_01890, test_chapter_align_line_02046, test_chapter_align_line_02113, test_chapter_align_line_02281, test_chapter_align_line_02434, test_chapter_align_line_02535, test_chapter_align_line_02618, test_chapter_align_line_02782, test_chapter_align_line_02857, test_chapter_align_line_02900, test_chapter_align_line_02922, test_chapter_align_line_02943, test_chapter_align_line_03006, test_chapter_align_line_03087, test_chapter_align_line_03251, test_chapter_align_line_03307, test_chapter_align_line_03355, test_chapter_align_line_03506, test_chapter_align_line_03582, test_chapter_align_line_03664, test_chapter_align_line_03727, test_chapter_align_line_03827, test_chapter_cluster_line_00427, test_chapter_cluster_line_00451, test_chapter_cluster_line_00959, test_chapter_cluster_line_00975, test_chapter_cookbook_line_00107, test_chapter_cookbook_line_00907, test_chapter_motifs_line_00030, test_chapter_motifs_line_01601, test_chapter_msa_line_00074, test_chapter_msa_line_00097, test_chapter_msa_line_00381, test_chapter_msa_line_00671, test_chapter_msa_line_00840, test_chapter_msa_line_00865, test_chapter_msa_line_01186, test_chapter_msa_line_01380, test_chapter_msa_line_01400, test_chapter_pairwise2_line_00020, test_chapter_pairwise2_line_00107, test_chapter_pairwise2_line_00126, test_chapter_pairwise2_line_00148, test_chapter_pairwise_line_00017, test_chapter_pairwise_line_00274, test_chapter_pairwise_line_00331, test_chapter_pairwise_line_00517, test_chapter_pairwise_line_00555, test_chapter_pairwise_line_00604, test_chapter_pairwise_line_00614, test_chapter_pairwise_line_00638, test_chapter_pairwise_line_00692, test_chapter_pairwise_line_00791, test_chapter_pairwise_line_00846, test_chapter_pairwise_line_00958, test_chapter_pairwise_line_00973, test_chapter_pairwise_line_01076, test_chapter_pairwise_line_01212, test_chapter_pairwise_line_01270, test_chapter_pairwise_line_01322, test_chapter_pairwise_line_01362, test_chapter_pairwise_line_01429, test_chapter_pairwise_line_01495, test_chapter_pairwise_line_01563, test_chapter_pairwise_line_01607, test_chapter_pairwise_line_01664, test_chapter_pairwise_line_01706, test_chapter_pairwise_line_01999, test_chapter_pdb_line_00934, test_chapter_phylo_line_00040, test_chapter_phylo_line_00074, test_chapter_phylo_line_00286, test_chapter_phylo_line_00348, test_chapter_phylo_line_00361, test_chapter_searchio_line_00118, test_chapter_searchio_line_00481, test_chapter_searchio_line_00639, test_chapter_searchio_line_00925, test_chapter_searchio_line_01040, test_chapter_searchio_line_01060, test_chapter_searchio_line_01096, test_chapter_seq_annot_line_00134, test_chapter_seq_annot_line_00213, test_chapter_seq_annot_line_00481, test_chapter_seq_annot_line_00620, test_chapter_seq_annot_line_00663, test_chapter_seq_annot_line_00821, test_chapter_seq_annot_line_00875, test_chapter_seq_annot_line_00962, test_chapter_seqio_line_00259, test_chapter_seqio_line_00272, test_chapter_seqio_line_00293, test_chapter_seqio_line_00311, test_chapter_seqio_line_00337, test_chapter_seqio_line_00348, test_chapter_seqio_line_00360, test_chapter_seqio_line_00373, test_chapter_seqio_line_00385, test_chapter_seqio_line_00543, test_chapter_seqio_line_00595, test_chapter_seqio_line_00722, test_chapter_seqio_line_00756, test_chapter_seqio_line_00987, test_chapter_seqio_line_01006, test_chapter_seqio_line_01263, test_chapter_seqio_line_01370, test_chapter_seqio_line_01399 ERROR while importing Bio.Align: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.AlignInfo: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._ClustalOmega: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Clustalw: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Dialign: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._MSAProbs: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Mafft: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Muscle: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Prank: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._Probcons: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.Applications._TCoffee: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.a2m: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.analysis: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.bed: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.bigbed: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.bigmaf: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.bigpsl: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.chain: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.clustal: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.emboss: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.exonerate: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.fasta: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.hhr: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.interfaces: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.maf: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.mauve: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.msf: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.nexus: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.phylip: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.psl: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.sam: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.stockholm: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.substitution_matrices: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Align.tabular: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.ClustalIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.EmbossIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.FastaIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.Interfaces: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.MafIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.MauveIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.MsfIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.NexusIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.PhylipIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.AlignIO.StockholmIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Blast.NCBIXML: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Blast.Record: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.CAPS: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Cluster: cannot import name '_cluster' from partially initialized module 'Bio.Cluster' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Cluster/__init__.py) ====================================================================== FAIL: Entrez (Bio) Doctest: Bio.Entrez ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 11, in Entrez ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 104, in Bio.Entrez Failed example: handle = Entrez.einfo() # or esearch, efetch, ... Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.einfo() # or esearch, efetch, ... File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 308, in einfo return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 105, in Bio.Entrez Failed example: record = Entrez.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 106, in Bio.Entrez Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 114, in Bio.Entrez Failed example: handle = Entrez.esummary(db="pubmed", id="19304878,14630660", retmode="xml") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.esummary(db="pubmed", id="19304878,14630660", retmode="xml") File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 341, in esummary return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 115, in Bio.Entrez Failed example: records = Entrez.parse(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in records = Entrez.parse(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 116, in Bio.Entrez Failed example: for record in records: # each record is a Python dictionary or list. print(record['Title']) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for record in records: NameError: name 'records' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 121, in Bio.Entrez Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ====================================================================== FAIL: ecitmatch (Bio.Entrez) Doctest: Bio.Entrez.ecitmatch ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.ecitmatch File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 433, in ecitmatch ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 449, in Bio.Entrez.ecitmatch Failed example: handle = Entrez.ecitmatch(db="pubmed", bdata=[citation_1]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.ecitmatch(db="pubmed", bdata=[citation_1]) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 460, in ecitmatch return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 450, in Bio.Entrez.ecitmatch Failed example: print(handle.read().strip().split("|")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(handle.read().strip().split("|")) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 452, in Bio.Entrez.ecitmatch Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ====================================================================== FAIL: efetch (Bio.Entrez) Doctest: Bio.Entrez.efetch ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.efetch File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 166, in efetch ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 179, in Bio.Entrez.efetch Failed example: handle = Entrez.efetch(db="nucleotide", id="AY851612", rettype="gb", retmode="text") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.efetch(db="nucleotide", id="AY851612", rettype="gb", retmode="text") File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 197, in efetch return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 180, in Bio.Entrez.efetch Failed example: print(handle.readline().strip()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(handle.readline().strip()) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 182, in Bio.Entrez.efetch Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ====================================================================== FAIL: egquery (Bio.Entrez) Doctest: Bio.Entrez.egquery ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.egquery File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 344, in egquery ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 359, in Bio.Entrez.egquery Failed example: handle = Entrez.egquery(term="biopython") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.egquery(term="biopython") File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 374, in egquery return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 360, in Bio.Entrez.egquery Failed example: record = Entrez.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 361, in Bio.Entrez.egquery Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 362, in Bio.Entrez.egquery Failed example: for row in record["eGQueryResult"]: if "pmc" in row["DbName"]: print(int(row["Count"]) > 60) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for row in record["eGQueryResult"]: NameError: name 'record' is not defined ====================================================================== FAIL: einfo (Bio.Entrez) Doctest: Bio.Entrez.einfo ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.einfo File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 284, in einfo ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 297, in Bio.Entrez.einfo Failed example: record = Entrez.read(Entrez.einfo()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(Entrez.einfo()) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 308, in einfo return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 298, in Bio.Entrez.einfo Failed example: 'pubmed' in record['DbList'] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in 'pubmed' in record['DbList'] NameError: name 'record' is not defined ====================================================================== FAIL: elink (Bio.Entrez) Doctest: Bio.Entrez.elink ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.elink File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 238, in elink ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 263, in Bio.Entrez.elink Failed example: handle = Entrez.elink(dbfrom="pubmed", id=pmid, linkname="pubmed_pubmed") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.elink(dbfrom="pubmed", id=pmid, linkname="pubmed_pubmed") File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 281, in elink return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 264, in Bio.Entrez.elink Failed example: record = Entrez.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 265, in Bio.Entrez.elink Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 266, in Bio.Entrez.elink Failed example: print(record[0]["LinkSetDb"][0]["LinkName"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record[0]["LinkSetDb"][0]["LinkName"]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 268, in Bio.Entrez.elink Failed example: linked = [link["Id"] for link in record[0]["LinkSetDb"][0]["Link"]] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in linked = [link["Id"] for link in record[0]["LinkSetDb"][0]["Link"]] NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 269, in Bio.Entrez.elink Failed example: "14630660" in linked Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "14630660" in linked NameError: name 'linked' is not defined ====================================================================== FAIL: esearch (Bio.Entrez) Doctest: Bio.Entrez.esearch ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.esearch File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 200, in esearch ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 214, in Bio.Entrez.esearch Failed example: handle = Entrez.esearch( db="nucleotide", retmax=10, idtype="acc", term="opuntia[ORGN] accD 2007[Publication Date]" ) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.esearch( File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 235, in esearch return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 219, in Bio.Entrez.esearch Failed example: record = Entrez.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 220, in Bio.Entrez.esearch Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 221, in Bio.Entrez.esearch Failed example: int(record["Count"]) >= 2 Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in int(record["Count"]) >= 2 NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 223, in Bio.Entrez.esearch Failed example: "EF590893.1" in record["IdList"] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "EF590893.1" in record["IdList"] NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 225, in Bio.Entrez.esearch Failed example: "EF590892.1" in record["IdList"] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "EF590892.1" in record["IdList"] NameError: name 'record' is not defined ====================================================================== FAIL: espell (Bio.Entrez) Doctest: Bio.Entrez.espell ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.espell File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 377, in espell ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 389, in Bio.Entrez.espell Failed example: record = Entrez.read(Entrez.espell(term="biopythooon")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(Entrez.espell(term="biopythooon")) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 402, in espell return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 390, in Bio.Entrez.espell Failed example: print(record["Query"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record["Query"]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 392, in Bio.Entrez.espell Failed example: print(record["CorrectedQuery"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record["CorrectedQuery"]) NameError: name 'record' is not defined ====================================================================== FAIL: esummary (Bio.Entrez) Doctest: Bio.Entrez.esummary ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Entrez.esummary File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 311, in esummary ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 325, in Bio.Entrez.esummary Failed example: handle = Entrez.esummary(db="structure", id="19923") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = Entrez.esummary(db="structure", id="19923") File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 341, in esummary return _open(request) File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 623, in _open handle = urlopen(request) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 326, in Bio.Entrez.esummary Failed example: record = Entrez.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = Entrez.read(handle) NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 327, in Bio.Entrez.esummary Failed example: handle.close() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle.close() NameError: name 'handle' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 328, in Bio.Entrez.esummary Failed example: print(record[0]["Id"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record[0]["Id"]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Entrez/__init__.py", line 330, in Bio.Entrez.esummary Failed example: print(record[0]["PdbDescr"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record[0]["PdbDescr"]) NameError: name 'record' is not defined ====================================================================== FAIL: get_prodoc_entry (Bio.ExPASy) Doctest: Bio.ExPASy.get_prodoc_entry ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.ExPASy.get_prodoc_entry File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 26, in get_prodoc_entry ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 31, in Bio.ExPASy.get_prodoc_entry Failed example: with ExPASy.get_prodoc_entry('PDOC00001') as in_handle: html = in_handle.read() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in with ExPASy.get_prodoc_entry('PDOC00001') as in_handle: File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 42, in get_prodoc_entry return _open(f"{cgi}?{id}") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 34, in Bio.ExPASy.get_prodoc_entry Failed example: with open("myprodocrecord.html", "w") as out_handle: length = out_handle.write(html) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 2, in length = out_handle.write(html) NameError: name 'html' is not defined ====================================================================== FAIL: get_prosite_entry (Bio.ExPASy) Doctest: Bio.ExPASy.get_prosite_entry ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.ExPASy.get_prosite_entry File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 47, in get_prosite_entry ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 52, in Bio.ExPASy.get_prosite_entry Failed example: with ExPASy.get_prosite_entry('PS00001') as in_handle: html = in_handle.read() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in with ExPASy.get_prosite_entry('PS00001') as in_handle: File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 63, in get_prosite_entry return _open(f"{cgi}?{id}") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 55, in Bio.ExPASy.get_prosite_entry Failed example: with open("myprositerecord.html", "w") as out_handle: length = out_handle.write(html) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 2, in length = out_handle.write(html) NameError: name 'html' is not defined ====================================================================== FAIL: get_prosite_raw (Bio.ExPASy) Doctest: Bio.ExPASy.get_prosite_raw ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.ExPASy.get_prosite_raw File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 66, in get_prosite_raw ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 74, in Bio.ExPASy.get_prosite_raw Failed example: with ExPASy.get_prosite_raw('PS00001') as handle: record = Prosite.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in with ExPASy.get_prosite_raw('PS00001') as handle: File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 88, in get_prosite_raw handle = _open(f"https://prosite.expasy.org/{id}.txt") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 77, in Bio.ExPASy.get_prosite_raw Failed example: print(record.accession) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.accession) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 82, in Bio.ExPASy.get_prosite_raw Failed example: handle = ExPASy.get_prosite_raw("DOES_NOT_EXIST") Expected: Traceback (most recent call last): ... ValueError: Failed to find entry 'DOES_NOT_EXIST' on ExPASy Got: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 1448, in connect super().connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in handle = ExPASy.get_prosite_raw("DOES_NOT_EXIST") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 88, in get_prosite_raw handle = _open(f"https://prosite.expasy.org/{id}.txt") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1391, in https_open return self.do_open(http.client.HTTPSConnection, req, File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ====================================================================== FAIL: get_sprot_raw (Bio.ExPASy) Doctest: Bio.ExPASy.get_sprot_raw ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.ExPASy.get_sprot_raw File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 94, in get_sprot_raw ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 102, in Bio.ExPASy.get_sprot_raw Failed example: with ExPASy.get_sprot_raw("O23729") as handle: record = SwissProt.read(handle) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in with ExPASy.get_sprot_raw("O23729") as handle: File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 117, in get_sprot_raw handle = _open(f"http://www.uniprot.org/uniprot/{id}.txt") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1377, in http_open return self.do_open(http.client.HTTPConnection, req) File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 105, in Bio.ExPASy.get_sprot_raw Failed example: print(record.entry_name) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.entry_name) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 110, in Bio.ExPASy.get_sprot_raw Failed example: ExPASy.get_sprot_raw("DOES_NOT_EXIST") Expected: Traceback (most recent call last): ... ValueError: Failed to find SwissProt entry 'DOES_NOT_EXIST' Got: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in ExPASy.get_sprot_raw("DOES_NOT_EXIST") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 117, in get_sprot_raw handle = _open(f"http://www.uniprot.org/uniprot/{id}.txt") File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/__init__.py", line 128, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1377, in http_open return self.do_open(http.client.HTTPConnection, req) File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ====================================================================== FAIL: cellosaurus (Bio.ExPASy) Doctest: Bio.ExPASy.cellosaurus ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.ExPASy.cellosaurus File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/cellosaurus.py", line 5, in cellosaurus ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/cellosaurus.py", line 31, in Bio.ExPASy.cellosaurus Failed example: bytestream = urlopen(url) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1555, in ftp_open host = socket.gethostbyname(host) socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in bytestream = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1557, in ftp_open raise URLError(msg) urllib.error.URLError: ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/cellosaurus.py", line 32, in Bio.ExPASy.cellosaurus Failed example: textstream = TextIOWrapper(bytestream, "UTF-8") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in textstream = TextIOWrapper(bytestream, "UTF-8") NameError: name 'bytestream' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/cellosaurus.py", line 36, in Bio.ExPASy.cellosaurus Failed example: records = cellosaurus.parse(textstream) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in records = cellosaurus.parse(textstream) NameError: name 'textstream' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/ExPASy/cellosaurus.py", line 37, in Bio.ExPASy.cellosaurus Failed example: for record in records: if 'Homo sapiens' in record['OX'][0]: print(record['ID']) # doctest:+ELLIPSIS Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for record in records: NameError: name 'records' is not defined ERROR while importing Bio.PDB: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.AbstractPropertyMap: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.DSSP: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.Dice: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.FragmentMapper: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.HSExposure: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.NACCESS: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.NeighborSearch: No module named 'Bio.PDB.ccealign' ====================================================================== FAIL: PDBIO (Bio.PDB.PDBIO) Doctest: Bio.PDB.PDBIO.PDBIO ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.PDB.PDBIO.PDBIO File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 122, in PDBIO ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 127, in Bio.PDB.PDBIO.PDBIO Failed example: from Bio.PDB import PDBParser Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio.PDB import PDBParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 129, in Bio.PDB.PDBIO.PDBIO Failed example: parser = PDBParser() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in parser = PDBParser() NameError: name 'PDBParser' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 130, in Bio.PDB.PDBIO.PDBIO Failed example: structure = parser.get_structure("1a8o", "PDB/1A8O.pdb") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in structure = parser.get_structure("1a8o", "PDB/1A8O.pdb") NameError: name 'parser' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 132, in Bio.PDB.PDBIO.PDBIO Failed example: io.set_structure(structure) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in io.set_structure(structure) NameError: name 'structure' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 133, in Bio.PDB.PDBIO.PDBIO Failed example: io.save("bio-pdb-pdbio-out.pdb") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in io.save("bio-pdb-pdbio-out.pdb") File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/PDBIO.py", line 329, in save if len(self.structure) > 1 or self.use_model_flag: AttributeError: 'PDBIO' object has no attribute 'structure' ERROR while importing Bio.PDB.PICIO: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.PSEA: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.ResidueDepth: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.SASA: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.SCADIO: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.StructureAlignment: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.cealign: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.ic_rebuild: No module named 'Bio.PDB.ccealign' ====================================================================== FAIL: MMCIFIO (Bio.PDB.mmcifio) Doctest: Bio.PDB.mmcifio.MMCIFIO ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.PDB.mmcifio.MMCIFIO File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 50, in MMCIFIO ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 55, in Bio.PDB.mmcifio.MMCIFIO Failed example: from Bio.PDB import MMCIFParser Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio.PDB import MMCIFParser File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/__init__.py", line 63, in from .cealign import CEAligner File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/cealign.py", line 23, in from Bio.PDB.ccealign import run_cealign ModuleNotFoundError: No module named 'Bio.PDB.ccealign' ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 57, in Bio.PDB.mmcifio.MMCIFIO Failed example: parser = MMCIFParser() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in parser = MMCIFParser() NameError: name 'MMCIFParser' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 58, in Bio.PDB.mmcifio.MMCIFIO Failed example: structure = parser.get_structure("1a8o", "PDB/1A8O.cif") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in structure = parser.get_structure("1a8o", "PDB/1A8O.cif") NameError: name 'parser' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 60, in Bio.PDB.mmcifio.MMCIFIO Failed example: io.set_structure(structure) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in io.set_structure(structure) NameError: name 'structure' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 61, in Bio.PDB.mmcifio.MMCIFIO Failed example: io.save("bio-pdb-mmcifio-out.cif") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in io.save("bio-pdb-mmcifio-out.cif") File "/builddir/build/BUILD/biopython-1.83/Bio/PDB/mmcifio.py", line 112, in save raise ValueError( ValueError: Use set_structure or set_dict to set a structure or dictionary to write out ERROR while importing Bio.PDB.mmtf: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.mmtf.DefaultParser: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.mmtf.mmtfio: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.PDB.qcprot: No module named 'Bio.PDB.ccealign' ERROR while importing Bio.Phylo: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.Applications: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.Applications._Fasttree: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.Applications._Phyml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.Applications._Raxml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: collapse_all (Bio.Phylo.BaseTree.TreeMixin) Doctest: Bio.Phylo.BaseTree.TreeMixin.collapse_all ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Phylo.BaseTree.TreeMixin.collapse_all File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 602, in collapse_all ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 611, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: from Bio import Phylo Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 612, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: tree = Phylo.read('PhyloXML/apaf.xml', 'phyloxml') Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in tree = Phylo.read('PhyloXML/apaf.xml', 'phyloxml') NameError: name 'Phylo' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 613, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: print("Total branch length %0.2f" % tree.total_branch_length()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("Total branch length %0.2f" % tree.total_branch_length()) NameError: name 'tree' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 615, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: tree.collapse_all(lambda c: c.confidence is not None and c.confidence < 70) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in tree.collapse_all(lambda c: c.confidence is not None and c.confidence < 70) NameError: name 'tree' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 616, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: print("Total branch length %0.2f" % tree.total_branch_length()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("Total branch length %0.2f" % tree.total_branch_length()) NameError: name 'tree' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 625, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: from Bio import Phylo Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 626, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: tree = Phylo.read('PhyloXML/apaf.xml', 'phyloxml') Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in tree = Phylo.read('PhyloXML/apaf.xml', 'phyloxml') NameError: name 'Phylo' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 627, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: print("Total branch length %0.2f" % tree.total_branch_length()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("Total branch length %0.2f" % tree.total_branch_length()) NameError: name 'tree' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 629, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: tree.collapse_all(lambda c: c.branch_length < 0.1) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in tree.collapse_all(lambda c: c.branch_length < 0.1) NameError: name 'tree' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 630, in Bio.Phylo.BaseTree.TreeMixin.collapse_all Failed example: print("Total branch length %0.2f" % tree.total_branch_length()) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("Total branch length %0.2f" % tree.total_branch_length()) NameError: name 'tree' is not defined ====================================================================== FAIL: find_elements (Bio.Phylo.BaseTree.TreeMixin) Doctest: Bio.Phylo.BaseTree.TreeMixin.find_elements ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.Phylo.BaseTree.TreeMixin.find_elements File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 309, in find_elements ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 343, in Bio.Phylo.BaseTree.TreeMixin.find_elements Failed example: from Bio import Phylo Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import Phylo File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/__init__.py", line 14, in from Bio.Phylo._io import parse, read, write, convert File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/_io.py", line 16, in from Bio.Phylo import BaseTree, NewickIO, NexusIO, PhyloXMLIO, NeXMLIO File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXMLIO.py", line 24, in from Bio.Phylo import PhyloXML as PX File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/PhyloXML.py", line 22, in from Bio.Align import Alignment, MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 344, in Bio.Phylo.BaseTree.TreeMixin.find_elements Failed example: phx = Phylo.PhyloXMLIO.read('PhyloXML/phyloxml_examples.xml') Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in phx = Phylo.PhyloXMLIO.read('PhyloXML/phyloxml_examples.xml') NameError: name 'Phylo' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 345, in Bio.Phylo.BaseTree.TreeMixin.find_elements Failed example: matches = phx.phylogenies[5].find_elements(code='OCTVU') Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in matches = phx.phylogenies[5].find_elements(code='OCTVU') NameError: name 'phx' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/Phylo/BaseTree.py", line 346, in Bio.Phylo.BaseTree.TreeMixin.find_elements Failed example: next(matches) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in next(matches) NameError: name 'matches' is not defined ERROR while importing Bio.Phylo.CDAO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.CDAOIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.Consensus: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.NeXML: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.NeXMLIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML._paml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML._parse_baseml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML._parse_codeml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML._parse_yn00: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML.baseml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML.chi2: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML.codeml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PAML.yn00: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PhyloXML: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.PhyloXMLIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo.TreeConstruction: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo._cdao_owl: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo._io: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.Phylo._utils: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SCOP: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SCOP.Dom: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SCOP.Raf: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.BlastIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.BlastIO.blast_tab: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.BlastIO.blast_xml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.BlatIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.ExonerateIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.ExonerateIO._base: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.ExonerateIO.exonerate_cigar: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.ExonerateIO.exonerate_text: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.ExonerateIO.exonerate_vulgar: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.FastaIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HHsuiteIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HHsuiteIO.hhsuite2_text: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO._base: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO.hmmer2_text: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO.hmmer3_domtab: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO.hmmer3_tab: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.HmmerIO.hmmer3_text: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.InterproscanIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO.InterproscanIO.interproscan_xml: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO._index: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO._model: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO._model.hit: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO._model.hsp: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SearchIO._model.query: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: __contains__ (Bio.SeqFeature.SeqFeature) Doctest: Bio.SeqFeature.SeqFeature.__contains__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqFeature.SeqFeature.__contains__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqFeature.py", line 581, in __contains__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqFeature.py", line 594, in Bio.SeqFeature.SeqFeature.__contains__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqFeature.py", line 595, in Bio.SeqFeature.SeqFeature.__contains__ Failed example: record = SeqIO.read("GenBank/NC_000932.gb", "gb") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("GenBank/NC_000932.gb", "gb") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqFeature.py", line 596, in Bio.SeqFeature.SeqFeature.__contains__ Failed example: for f in record.features: if 1750 in f: print("%s %s" % (f.type, f.location)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for f in record.features: NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqFeature.py", line 609, in Bio.SeqFeature.SeqFeature.__contains__ Failed example: for f in record.features: if 1760 in f: print("%s %s" % (f.type, f.location)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for f in record.features: NameError: name 'record' is not defined ERROR while importing Bio.SeqIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.AbiIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.AceIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.FastaIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.GckIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.IgIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.InsdcIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.Interfaces: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.NibIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.PdbIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.PhdIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.PirIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.QualityIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.SeqXmlIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.SffIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.SnapGeneIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.SwissIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.TabIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.TwoBitIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.UniprotIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO.XdnaIO: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.SeqIO._index: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: SeqRecord (Bio.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 119, in SeqRecord ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 161, in Bio.SeqRecord.SeqRecord Failed example: print(record.format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.format("fasta")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: __add__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__add__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__add__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 883, in __add__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 892, in Bio.SeqRecord.SeqRecord.__add__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 893, in Bio.SeqRecord.SeqRecord.__add__ Failed example: record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 894, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print("%s %s" % (record.id, record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (record.id, record.seq)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 896, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print(list(record.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(record.letter_annotations)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 899, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new = record + "ACT" Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new = record + "ACT" NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 900, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print("%s %s" % (new.id, new.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (new.id, new.seq)) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 902, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print(list(new.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(new.letter_annotations)) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 909, in Bio.SeqRecord.SeqRecord.__add__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 910, in Bio.SeqRecord.SeqRecord.__add__ Failed example: with open("GenBank/pBAD30.gb") as handle: plasmid = SeqIO.read(handle, "gb") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 2, in plasmid = SeqIO.read(handle, "gb") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 912, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print("%s %i" % (plasmid.id, len(plasmid))) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %i" % (plasmid.id, len(plasmid))) NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 920, in Bio.SeqRecord.SeqRecord.__add__ Failed example: left = plasmid[:3765] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in left = plasmid[:3765] NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 921, in Bio.SeqRecord.SeqRecord.__add__ Failed example: right = plasmid[3765:] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in right = plasmid[3765:] NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 922, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new = right + left Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new = right + left NameError: name 'right' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 923, in Bio.SeqRecord.SeqRecord.__add__ Failed example: print("%s %i" % (new.id, len(new))) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %i" % (new.id, len(new))) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 925, in Bio.SeqRecord.SeqRecord.__add__ Failed example: str(new.seq) == str(right.seq + left.seq) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in str(new.seq) == str(right.seq + left.seq) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 927, in Bio.SeqRecord.SeqRecord.__add__ Failed example: len(new.features) == len(left.features) + len(right.features) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(new.features) == len(left.features) + len(right.features) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 933, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.id == left.id == right.id == plasmid.id Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.id == left.id == right.id == plasmid.id NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 935, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.name == left.name == right.name == plasmid.name Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.name == left.name == right.name == plasmid.name NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 937, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.description == plasmid.description Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.description == plasmid.description NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 939, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.annotations == left.annotations == right.annotations Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.annotations == left.annotations == right.annotations NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 941, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.letter_annotations == plasmid.letter_annotations Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.letter_annotations == plasmid.letter_annotations NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 943, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.dbxrefs == left.dbxrefs == right.dbxrefs Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.dbxrefs == left.dbxrefs == right.dbxrefs NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 950, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.annotations = plasmid.annotations.copy() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.annotations = plasmid.annotations.copy() NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 951, in Bio.SeqRecord.SeqRecord.__add__ Failed example: new.dbxrefs = plasmid.dbxrefs[:] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new.dbxrefs = plasmid.dbxrefs[:] NameError: name 'plasmid' is not defined ====================================================================== FAIL: __contains__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__contains__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__contains__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 631, in __contains__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 636, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 637, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: record = SeqIO.read("Fasta/sweetpea.nu", "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Fasta/sweetpea.nu", "fasta") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 638, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: "GAATTC" in record Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "GAATTC" in record NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 640, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: "AAA" in record Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "AAA" in record NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 645, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: "GAATTC" in record.seq Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "GAATTC" in record.seq NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 647, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: "AAA" in record.seq Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in "AAA" in record.seq NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 653, in Bio.SeqRecord.SeqRecord.__contains__ Failed example: Seq("AAA") in record Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in Seq("AAA") in record NameError: name 'record' is not defined ====================================================================== FAIL: __format__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__format__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__format__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 784, in __format__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 798, in Bio.SeqRecord.SeqRecord.__format__ Failed example: format(record, "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in format(record, "fasta") File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 800, in Bio.SeqRecord.SeqRecord.__format__ Failed example: print(f"Here is {record.id} in FASTA format:\n{record:fasta}") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(f"Here is {record.id} in FASTA format:\n{record:fasta}") File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: __iter__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__iter__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__iter__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 577, in __iter__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 582, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 583, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: record = SeqIO.read("Fasta/loveliesbleeding.pro", "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Fasta/loveliesbleeding.pro", "fasta") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 584, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: for amino in record: print(amino) if amino == "L": break Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for amino in record: NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 591, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: print(record.seq[3]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.seq[3]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 596, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: for amino in record.seq: print(amino) if amino == "L": break Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for amino in record.seq: NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 603, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: print(record.seq[3]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.seq[3]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 611, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 612, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: rec = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in rec = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 613, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: print("%s %s" % (rec.id, rec.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (rec.id, rec.seq)) NameError: name 'rec' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 615, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: print(list(rec.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(rec.letter_annotations)) NameError: name 'rec' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 617, in Bio.SeqRecord.SeqRecord.__iter__ Failed example: for nuc, qual in zip(rec, rec.letter_annotations["solexa_quality"]): if qual > 35: print("%s %i" % (nuc, qual)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for nuc, qual in zip(rec, rec.letter_annotations["solexa_quality"]): NameError: name 'rec' is not defined ====================================================================== FAIL: __len__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__len__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__len__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 828, in __len__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 833, in Bio.SeqRecord.SeqRecord.__len__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 834, in Bio.SeqRecord.SeqRecord.__len__ Failed example: record = SeqIO.read("Fasta/sweetpea.nu", "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Fasta/sweetpea.nu", "fasta") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 835, in Bio.SeqRecord.SeqRecord.__len__ Failed example: len(record) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(record) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 837, in Bio.SeqRecord.SeqRecord.__len__ Failed example: len(record.seq) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(record.seq) NameError: name 'record' is not defined ====================================================================== FAIL: __radd__ (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.__radd__ ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.__radd__ File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 993, in __radd__ ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1000, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1001, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1002, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: print("%s %s" % (record.id, record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (record.id, record.seq)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1004, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: print(list(record.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(record.letter_annotations)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1007, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: new = "ACT" + record Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new = "ACT" + record NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1008, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: print("%s %s" % (new.id, new.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (new.id, new.seq)) NameError: name 'new' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1010, in Bio.SeqRecord.SeqRecord.__radd__ Failed example: print(list(new.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(new.letter_annotations)) NameError: name 'new' is not defined ====================================================================== FAIL: format (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.format ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.format File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 752, in format ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 764, in Bio.SeqRecord.SeqRecord.format Failed example: record.format("fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record.format("fasta") File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 766, in Bio.SeqRecord.SeqRecord.format Failed example: print(record.format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.format("fasta")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: letter_annotations (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.letter_annotations ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.letter_annotations File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line unknown line number, in letter_annotations ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: print("%s %s" % (record.id, record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (record.id, record.seq)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: print(list(record.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(record.letter_annotations)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: print(record.letter_annotations["solexa_quality"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.letter_annotations["solexa_quality"]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: sub_record = record[-10:] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in sub_record = record[-10:] NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: print("%s %s" % (sub_record.id, sub_record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (sub_record.id, sub_record.seq)) NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: print(sub_record.letter_annotations["solexa_quality"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(sub_record.letter_annotations["solexa_quality"]) NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: len(sub_record.letter_annotations) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(sub_record.letter_annotations) NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: sub_record.letter_annotations["dummy"] = "abcdefghij" Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in sub_record.letter_annotations["dummy"] = "abcdefghij" NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: len(sub_record.letter_annotations) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(sub_record.letter_annotations) NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: del sub_record.letter_annotations["solexa_quality"] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in del sub_record.letter_annotations["solexa_quality"] NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: sub_record.letter_annotations Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in sub_record.letter_annotations NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: sub_record.letter_annotations = {} Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in sub_record.letter_annotations = {} NameError: name 'sub_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line ?, in Bio.SeqRecord.SeqRecord.letter_annotations Failed example: sub_record.letter_annotations Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in sub_record.letter_annotations NameError: name 'sub_record' is not defined ====================================================================== FAIL: lower (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.lower ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.lower File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1076, in lower ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1081, in Bio.SeqRecord.SeqRecord.lower Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1082, in Bio.SeqRecord.SeqRecord.lower Failed example: record = SeqIO.read("Fasta/aster.pro", "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Fasta/aster.pro", "fasta") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1083, in Bio.SeqRecord.SeqRecord.lower Failed example: print(record.format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.format("fasta")) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1088, in Bio.SeqRecord.SeqRecord.lower Failed example: print(record.lower().format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.lower().format("fasta")) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1096, in Bio.SeqRecord.SeqRecord.lower Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1097, in Bio.SeqRecord.SeqRecord.lower Failed example: old = SeqIO.read("EMBL/TRBG361.embl", "embl") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in old = SeqIO.read("EMBL/TRBG361.embl", "embl") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1098, in Bio.SeqRecord.SeqRecord.lower Failed example: len(old.features) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(old.features) NameError: name 'old' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1100, in Bio.SeqRecord.SeqRecord.lower Failed example: new = old.lower() Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in new = old.lower() NameError: name 'old' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1101, in Bio.SeqRecord.SeqRecord.lower Failed example: len(old.features) == len(new.features) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(old.features) == len(new.features) NameError: name 'old' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1103, in Bio.SeqRecord.SeqRecord.lower Failed example: old.annotations["organism"] == new.annotations["organism"] Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in old.annotations["organism"] == new.annotations["organism"] NameError: name 'old' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1105, in Bio.SeqRecord.SeqRecord.lower Failed example: old.dbxrefs == new.dbxrefs Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in old.dbxrefs == new.dbxrefs NameError: name 'old' is not defined ====================================================================== FAIL: reverse_complement (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.reverse_complement ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.reverse_complement File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1142, in reverse_complement ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1166, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1167, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read("Quality/solexa_faked.fastq", "fastq-solexa") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1168, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print("%s %s" % (record.id, record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (record.id, record.seq)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1170, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(list(record.letter_annotations)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(list(record.letter_annotations)) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1172, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(record.letter_annotations["solexa_quality"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.letter_annotations["solexa_quality"]) NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1178, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: rc_record = record.reverse_complement(id=record.id + "_rc") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in rc_record = record.reverse_complement(id=record.id + "_rc") NameError: name 'record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1179, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print("%s %s" % (rc_record.id, rc_record.seq)) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %s" % (rc_record.id, rc_record.seq)) NameError: name 'rc_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1185, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(rc_record.letter_annotations["solexa_quality"]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(rc_record.letter_annotations["solexa_quality"]) NameError: name 'rc_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1192, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1193, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: with open("GenBank/pBAD30.gb") as handle: plasmid = SeqIO.read(handle, "gb") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 2, in plasmid = SeqIO.read(handle, "gb") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1195, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print("%s %i" % (plasmid.id, len(plasmid))) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %i" % (plasmid.id, len(plasmid))) NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1197, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: plasmid.seq Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in plasmid.seq NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1199, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: len(plasmid.features) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(plasmid.features) NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1204, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: rc_plasmid = plasmid.reverse_complement(id=plasmid.id+"_rc") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in rc_plasmid = plasmid.reverse_complement(id=plasmid.id+"_rc") NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1205, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print("%s %i" % (rc_plasmid.id, len(rc_plasmid))) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print("%s %i" % (rc_plasmid.id, len(rc_plasmid))) NameError: name 'rc_plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1207, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: rc_plasmid.seq Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in rc_plasmid.seq NameError: name 'rc_plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1209, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: len(rc_plasmid.features) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(rc_plasmid.features) NameError: name 'rc_plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1216, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(plasmid.features[1]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(plasmid.features[1]) NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1224, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(rc_plasmid.features[-2]) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(rc_plasmid.features[-2]) NameError: name 'rc_plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1235, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: len(plasmid) - 1081 Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(plasmid) - 1081 NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1237, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: len(plasmid) - 1960 Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in len(plasmid) - 1960 NameError: name 'plasmid' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1263, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(rna1.reverse_complement(id="RC", description="unk").format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(rna1.reverse_complement(id="RC", description="unk").format("fasta")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1267, in Bio.SeqRecord.SeqRecord.reverse_complement Failed example: print(rna2.reverse_complement(id="RC", description="RNA").format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(rna2.reverse_complement(id="RC", description="RNA").format("fasta")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: translate (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.translate ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.translate File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1362, in translate ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1384, in Bio.SeqRecord.SeqRecord.translate Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1385, in Bio.SeqRecord.SeqRecord.translate Failed example: gene_record = SeqIO.read("Fasta/sweetpea.nu", "fasta") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in gene_record = SeqIO.read("Fasta/sweetpea.nu", "fasta") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1386, in Bio.SeqRecord.SeqRecord.translate Failed example: print(gene_record.format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(gene_record.format("fasta")) NameError: name 'gene_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1398, in Bio.SeqRecord.SeqRecord.translate Failed example: protein_record = gene_record.translate(table=11, id="phya", description="translation") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in protein_record = gene_record.translate(table=11, NameError: name 'gene_record' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1401, in Bio.SeqRecord.SeqRecord.translate Failed example: print(protein_record.format("fasta")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(protein_record.format("fasta")) NameError: name 'protein_record' is not defined ====================================================================== FAIL: upper (Bio.SeqRecord.SeqRecord) Doctest: Bio.SeqRecord.SeqRecord.upper ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.SeqRecord.SeqRecord.upper File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1039, in upper ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1049, in Bio.SeqRecord.SeqRecord.upper Failed example: print(record.upper().format("fastq")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.upper().format("fastq")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 1058, in Bio.SeqRecord.SeqRecord.upper Failed example: print(record.lower().format("fastq")) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.lower().format("fastq")) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 782, in format return self.__format__(format) File "/builddir/build/BUILD/biopython-1.83/Bio/SeqRecord.py", line 811, in __format__ from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ====================================================================== FAIL: search_iter (Bio.TogoWS) Doctest: Bio.TogoWS.search_iter ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.TogoWS.search_iter File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 193, in search_iter ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 206, in Bio.TogoWS.search_iter Failed example: for id in TogoWS.search_iter("pubmed", "diabetes+human", limit=10): print("PubMed ID: %s" %id) # maybe fetch data with entry? Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/urllib/request.py", line 1348, in do_open h.request(req.get_method(), req.selector, req.data, headers, File "/usr/lib64/python3.10/http/client.py", line 1283, in request self._send_request(method, url, body, headers, encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1329, in _send_request self.endheaders(body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1278, in endheaders self._send_output(message_body, encode_chunked=encode_chunked) File "/usr/lib64/python3.10/http/client.py", line 1038, in _send_output self.send(msg) File "/usr/lib64/python3.10/http/client.py", line 976, in send self.connect() File "/usr/lib64/python3.10/http/client.py", line 942, in connect self.sock = self._create_connection( File "/usr/lib64/python3.10/socket.py", line 824, in create_connection for res in getaddrinfo(host, port, 0, SOCK_STREAM): File "/usr/lib64/python3.10/socket.py", line 955, in getaddrinfo for res in _socket.getaddrinfo(host, port, family, type, proto, flags): socket.gaierror: [Errno -3] Temporary failure in name resolution During handling of the above exception, another exception occurred: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in for id in TogoWS.search_iter("pubmed", "diabetes+human", limit=10): File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 213, in search_iter count = search_count(db, query) File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 171, in search_count _search_db_names = _get_fields(_BASE_URL + "/search") File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 59, in _get_fields handle = _open(url) File "/builddir/build/BUILD/biopython-1.83/Bio/TogoWS/__init__.py", line 363, in _open handle = urlopen(url) File "/usr/lib64/python3.10/urllib/request.py", line 216, in urlopen return opener.open(url, data, timeout) File "/usr/lib64/python3.10/urllib/request.py", line 519, in open response = self._open(req, data) File "/usr/lib64/python3.10/urllib/request.py", line 536, in _open result = self._call_chain(self.handle_open, protocol, protocol + File "/usr/lib64/python3.10/urllib/request.py", line 496, in _call_chain result = func(*args) File "/usr/lib64/python3.10/urllib/request.py", line 1377, in http_open return self.do_open(http.client.HTTPConnection, req) File "/usr/lib64/python3.10/urllib/request.py", line 1351, in do_open raise URLError(err) urllib.error.URLError: ====================================================================== FAIL: bgzf (Bio) Doctest: Bio.bgzf ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 2221, in runTest raise self.failureException(self.format_failure(new.getvalue())) AssertionError: Failed doctest test for Bio.bgzf File "/builddir/build/BUILD/biopython-1.83/Bio/bgzf.py", line 8, in bgzf ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/bgzf.py", line 210, in Bio.bgzf Failed example: from Bio import SeqIO Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in from Bio import SeqIO File "/builddir/build/BUILD/biopython-1.83/Bio/SeqIO/__init__.py", line 377, in from Bio.Align import MultipleSeqAlignment File "/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py", line 38, in from Bio.Align import _pairwisealigner # type: ignore ImportError: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/bgzf.py", line 212, in Bio.bgzf Failed example: record = SeqIO.read(handle, "genbank") Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in record = SeqIO.read(handle, "genbank") NameError: name 'SeqIO' is not defined ---------------------------------------------------------------------- File "/builddir/build/BUILD/biopython-1.83/Bio/bgzf.py", line 214, in Bio.bgzf Failed example: print(record.id) Exception raised: Traceback (most recent call last): File "/usr/lib64/python3.10/doctest.py", line 1350, in __run exec(compile(example.source, filename, "single", File "", line 1, in print(record.id) NameError: name 'record' is not defined ERROR while importing Bio.codonalign: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.codonalign.codonalignment: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.alignace: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.applications: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.applications._xxmotif: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.clusterbuster: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.jaspar: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.jaspar.db: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.mast: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.matrix: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.meme: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.minimal: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.pfm: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.thresholds: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.transfac: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.motifs.xms: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ERROR while importing Bio.pairwise2: cannot import name '_pairwisealigner' from partially initialized module 'Bio.Align' (most likely due to a circular import) (/builddir/build/BUILD/biopython-1.83/Bio/Align/__init__.py) ---------------------------------------------------------------------- Ran 547 tests in 360.915 seconds FAILED (failures = 344) Python version: 3.10.13 (main, Aug 25 2023, 00:00:00) [GCC 12.2.1 20221121 (Anolis OS 12.2.1-2)] Operating system: posix linux + RPM_EC=0 ++ jobs -p + exit 0 Processing files: python3-biopython-1.83-1.an23.aarch64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.4IygO0 + umask 022 + cd /builddir/build/BUILD + cd biopython-1.83 + DOCDIR=/builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr README.rst /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/Blast/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/Blat/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/Exonerate/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/HHsuite/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/Hmmer/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/PAML/Control_files/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/Roche/README.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + cp -pr Tests/SamBam/readme.txt /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/doc/python3-biopython + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.MMt8sj + umask 022 + cd /builddir/build/BUILD + cd biopython-1.83 + LICENSEDIR=/builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/licenses/python3-biopython + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/licenses/python3-biopython + cp -pr LICENSE /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/licenses/python3-biopython + cp -pr LICENSE.rst /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64/usr/share/licenses/python3-biopython + RPM_EC=0 ++ jobs -p + exit 0 warning: File listed twice: /usr/share/doc/python3-biopython/README.txt warning: File listed twice: /usr/share/doc/python3-biopython/README.txt warning: File listed twice: /usr/share/doc/python3-biopython/README.txt warning: File listed twice: /usr/share/doc/python3-biopython/README.txt warning: File listed twice: /usr/share/doc/python3-biopython/README.txt warning: File listed twice: /usr/share/doc/python3-biopython/README.txt Provides: python-biopython = 1.83-1.an23 python3-biopython = 1.83-1.an23 python3-biopython(aarch-64) = 1.83-1.an23 python3.10-biopython = 1.83-1.an23 python3.10dist(biopython) = 1.83 python3dist(biopython) = 1.83 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-aarch64.so.1()(64bit) ld-linux-aarch64.so.1(GLIBC_2.17)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.17)(64bit) libpython3.10.so.1.0()(64bit) python(abi) = 3.10 python3.10dist(numpy) rtld(GNU_HASH) Obsoletes: python-biopython < 1.83-1.an23 Processing files: python-biopython-debugsource-1.83-1.an23.aarch64 Provides: python-biopython-debugsource = 1.83-1.an23 python-biopython-debugsource(aarch-64) = 1.83-1.an23 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: python3-biopython-debuginfo-1.83-1.an23.aarch64 Provides: debuginfo(build-id) = 05a39edc71f6e5a3e08f38a43ada185e02ccafda debuginfo(build-id) = 37a936dc48f3f5a6c65ed414fe03e7683386a1bc debuginfo(build-id) = 6aedbb6ce345aced96a8e74f4df5318ec199fd9c debuginfo(build-id) = 7f4823e1a685deff81f4654eb28d375f807a8d94 debuginfo(build-id) = 9e3ecbfa7c26455afdc251474ff973465d627e17 debuginfo(build-id) = a731bba08d823dc817bfa857bd2cb27ec3a5c5d7 debuginfo(build-id) = abc5e7f20d0f7b2defea85a94c5d79655eea5dee debuginfo(build-id) = d63162ce2f7ddd41c2d5148c05644a96da485c09 debuginfo(build-id) = e992dfeb5f5821be5282719ef05bfe0e3ae3075f python-biopython-debuginfo = 1.83-1.an23 python3-biopython-debuginfo = 1.83-1.an23 python3-biopython-debuginfo(aarch-64) = 1.83-1.an23 python3.10-biopython-debuginfo = 1.83-1.an23 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: python-biopython-debugsource(aarch-64) = 1.83-1.an23 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/python-biopython-1.83-1.an23.aarch64 Wrote: /builddir/build/RPMS/python-biopython-debugsource-1.83-1.an23.aarch64.rpm Wrote: /builddir/build/RPMS/python3-biopython-debuginfo-1.83-1.an23.aarch64.rpm Wrote: /builddir/build/RPMS/python3-biopython-1.83-1.an23.aarch64.rpm RPM build warnings: File listed twice: /usr/share/doc/python3-biopython/README.txt File listed twice: /usr/share/doc/python3-biopython/README.txt File listed twice: /usr/share/doc/python3-biopython/README.txt File listed twice: /usr/share/doc/python3-biopython/README.txt File listed twice: /usr/share/doc/python3-biopython/README.txt File listed twice: /usr/share/doc/python3-biopython/README.txt Child return code was: 0