Hints

Michael R. Crusoe

We have the following e-mail addresses on file:

• crusoe@debian.org
• michael.crusoe@gmail.com
• mcrusoe@msu.edu
• crusoe@ucdavis.edu

Found 505 issues in 58 maintained sources. To see all packaging hints, please click on the source.

• abyss 2.3.3-2
• abyss_2.3.3-2_amd64.deb (main)
  • W no-manual-page usr/bin/abyss-pe
  • W privacy-breach-generic [<img src="https://img.shields.io/conda/dn/bioconda/abyss?label=conda" alt="conda" />] (https://img.shields.io/conda/dn/bioconda/abyss?label=conda) [usr/share/doc/abyss/README.html]
  • W privacy-breach-generic [<img src="https://img.shields.io/github/downloads/bcgsc/abyss/total?logo=github" alt="downloads" />] (https://img.shields.io/github/downloads/bcgsc/abyss/total?logo=github) [usr/share/doc/abyss/README.html]
  • W privacy-breach-generic [<img src="https://img.shields.io/github/issues/bcgsc/abyss.svg" alt="issues" />] (https://img.shields.io/github/issues/bcgsc/abyss.svg) [usr/share/doc/abyss/README.html]
  • W privacy-breach-generic [<img src="https://img.shields.io/github/release/bcgsc/abyss.svg" alt="release" />] (https://img.shields.io/github/release/bcgsc/abyss.svg) [usr/share/doc/abyss/README.html]
• ataqv 1.2.1+ds-2
• ataqv_1.2.1+ds-2_amd64.deb (main)
  • W no-manual-page usr/bin/make_ataqv_pipeline
  • W no-manual-page usr/bin/run_ataqv_example
• bcftools 1.13-1
• bcftools_1.13-1_amd64.deb (main)
  • W no-manual-page usr/bin/gff2gff.py
  • W no-manual-page usr/bin/guess-ploidy.py
  • W no-manual-page usr/bin/plot-roh.py
  • W no-manual-page usr/bin/run-roh.pl
  • W script-with-language-extension usr/bin/color-chrs.pl
  • W script-with-language-extension usr/bin/gff2gff.py
  • W script-with-language-extension usr/bin/guess-ploidy.py
  • W script-with-language-extension usr/bin/plot-roh.py
  • W script-with-language-extension usr/bin/run-roh.pl
  • W script-with-language-extension usr/bin/vcfutils.pl
• benchmark 1.6.0-2
• libbenchmark-tools_1.6.0-2_all.deb (main)
  • W unusual-interpreter python [usr/share/benchmark/compare.py]
  • W unusual-interpreter python [usr/share/benchmark/strip_asm.py]
• cnvkit 0.9.9-2
• cnvkit_0.9.9-2_amd64.deb (main)
  • W groff-message usr/share/man/man1/cnvkit.1.gz (line 1) 8: warning [p 1, 1.7i]: cannot adjust line
  • W groff-message usr/share/man/man1/cnvkit.1.gz (line 2) 8: warning [p 1, 1.8i]: cannot adjust line
  • W groff-message usr/share/man/man1/cnvkit.1.gz (line 3) 14: warning [p 1, 2.8i, div 'an-div', 0.0i]: cannot adjust line
  • W groff-message usr/share/man/man1/cnvkit.1.gz (line 4) 14: warning [p 1, 2.8i, div 'an-div', 0.2i]: cannot adjust line
  • W no-manual-page usr/bin/cnvkit-cnv_annotate
  • W no-manual-page usr/bin/cnvkit-cnv_expression_correlate
  • W no-manual-page usr/bin/cnvkit-cnv_updater
  • W no-manual-page usr/bin/cnvkit-genome_instability_index
  • W no-manual-page usr/bin/cnvkit-guess_baits
  • W no-manual-page usr/bin/cnvkit-skg_convert
  • W no-manual-page usr/bin/snpfilter.sh
  • W script-with-language-extension usr/bin/snpfilter.sh
• ctdconverter 2.1-4
• ctdconverter_2.1-4_all.deb (main)
  • W groff-message usr/share/man/man1/CTDConverter.1.gz (line 1) 75: warning [p 2, 1.8i]: can't break line
  • W groff-message usr/share/man/man1/CTDConverter.1.gz (line 2) 126: warning [p 2, 9.3i]: can't break line
• cwltool 3.1.20211104071347-2
• cwltool_3.1.20211104071347-2_all.deb (main)
  • E unknown-file-in-python-module-directory usr/lib/python3/dist-packages/out
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/reloc/test.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/subgraph/1432.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/subgraph/env-tool2.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/subgraph/env-tool2_no_env.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/subgraph/env-tool2_req.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/subgraph/env-wf2_subwf-packed.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/1496.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/811.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/816_tool.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/816_wf.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/expect_iwd-passthrough1_packed.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/expect_packed.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/expect_revsort_datetime_packed.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/operation/abstract-cosifer.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/operation/expect_operation-single_packed.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/operation/operation-single.cwl
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/cwltool/tests/wf/schemadef-bug-1473.cwl
  • W mismatched-override unusual-interpreter usr/lib/python3/dist-packages/cwltool/hello.simg run-singularity
  • W unusual-interpreter run-singularity [usr/lib/python3/dist-packages/cwltool/hello.simg]
• golang-github-abeconnelly-autoio 0.0~git20150803.989b7b0-3
• golang-github-abeconnelly-autoio_0.0~git20150803.989b7b0-3.dsc (main)
  • W no-nmu-in-changelog
  • W source-nmu-has-incorrect-version-number 0.0~git20150803.989b7b0-3
• golang-github-abeconnelly-autoio-dev_0.0~git20150803.989b7b0-3_all.deb (main)
  • W package-has-long-file-name golang-github-abeconnelly-autoio-dev_0.0~git20150803.989b7b0-3_all.deb
• guzzle-sphinx-theme 0.7.11-5
• guzzle-sphinx-theme_0.7.11-5.dsc (main)
  • E old-dpmt-vcs Browser
  • E old-dpmt-vcs Git
  • E python-teams-merged Debian Python Modules Team <python-modules-team@lists.alioth.debian.org>
  • W pypi-homepage https://pypi.python.org/pypi/guzzle_sphinx_theme
• python3-guzzle-sphinx-theme_0.7.11-5_all.deb (main)
  • E malformed-override Unknown tag package-contains-broken-symlink in line 10
  • E malformed-override Unknown tag package-contains-broken-symlink in line 4
  • E malformed-override Unknown tag package-contains-broken-symlink in line 5
  • E malformed-override Unknown tag package-contains-broken-symlink in line 6
  • E malformed-override Unknown tag package-contains-broken-symlink in line 7
  • E malformed-override Unknown tag package-contains-broken-symlink in line 8
  • E malformed-override Unknown tag package-contains-broken-symlink in line 9
• hisat2 2.2.1-3
• python3-hisat2_2.2.1-3_all.deb (main)
  • W no-manual-page usr/bin/hisat2_extract_exons.py
  • W no-manual-page usr/bin/hisat2_extract_snps_haplotypes_UCSC.py
  • W no-manual-page usr/bin/hisat2_extract_snps_haplotypes_VCF.py
  • W no-manual-page usr/bin/hisat2_extract_splice_sites.py
• htscodecs 1.1.1-3
• htscodecs_1.1.1-3.dsc (main)
  • W patch-file-present-but-not-mentioned-in-series big-endian
  • W patch-file-present-but-not-mentioned-in-series ship_varint_h
• htslib 1.13+ds-2
• libhts-dev_1.13+ds-2_amd64.deb (main)
  • E no-code-sections usr/lib/x86_64-linux-gnu/libhts.a (bcf_sr_sort.o bgzf.o cram_codecs.o cram_decode.o cram_encode.o cram_external.o cram_index.o cram_io.o cram_stats.o errmod.o faidx.o header.o hfile.o hts.o hts_expr.o hts_os.o kfunc.o kstring.o mFILE.o md5.o multipart.o open_trace_file.o plugin.o pooled_alloc.o probaln.o realn.o regidx.o region.o sam.o string_alloc.o synced_bcf_reader.o tbx.o textutils.o thread_pool.o vcf.o vcf_sweep.o vcfutils.o)
• libhts3_1.13+ds-2_amd64.deb (main)
  • W bad-whatis-entry usr/share/man/man7/htslib-s3-plugin.7.gz
• jellyfish 2.3.0-12
• libjellyfish-2.0-dev_2.3.0-12_amd64.deb (main)
  • W package-name-defined-in-config-h usr/include/jellyfish/config.h
• khmer 2.1.2+dfsg-9
• khmer_2.1.2+dfsg-9.dsc (main)
  • W inconsistent-appstream-metadata-license debian/copyright debian/khmer.metainfo.xml (mit != bsd-3-clause)
• khmer_2.1.2+dfsg-9_amd64.deb (main)
  • W broken-bz2 usr/lib/python3/dist-packages/khmer/tests/test-data/100-reads.fq.truncated.bz2
  • W broken-bz2 usr/lib/python3/dist-packages/khmer/tests/test-data/test-empty.fa.bz2
  • W broken-gz usr/lib/python3/dist-packages/khmer/tests/test-data/100-reads.fq.truncated.gz
• libbio-db-ace-perl 1.7.3-2
• libbio-db-ace-perl_1.7.3-2.dsc (main)
  • W upstream-metadata-field-unknown Homepage
• libbio-db-biofetch-perl 1.7.3-4
• libbio-db-biofetch-perl_1.7.3-4.dsc (main)
  • W obsolete-runtime-tests-restriction needs-recommends in line 18
• libbio-db-embl-perl 1.7.4-4
• libbio-db-embl-perl_1.7.4-4.dsc (main)
  • W obsolete-runtime-tests-restriction needs-recommends in line 18
• libbio-db-gff-perl 1.7.4-1
• libbio-db-gff-perl_1.7.4-1.dsc (main)
  • W upstream-metadata-field-unknown Homepage
• libbio-db-gff-perl_1.7.4-1_all.deb (main)
  • W no-manual-page usr/bin/bp_das_server
• libbio-db-ncbihelper-perl 1.7.6-4
• libbio-db-ncbihelper-perl_1.7.6-4.dsc (main)
  • W obsolete-runtime-tests-restriction needs-recommends in line 18
• libbio-db-seqfeature-perl 1.7.4-1
• libbio-db-seqfeature-perl_1.7.4-1.dsc (main)
  • W upstream-metadata-field-unknown Homepage
• libbio-db-seqfeature-perl_1.7.4-1_all.deb (main)
  • W no-manual-page usr/bin/bp_seqfeature_delete
  • W no-manual-page usr/bin/bp_seqfeature_gff3
• libbio-searchio-hmmer-perl 1.7.3-2
• libbio-searchio-hmmer-perl_1.7.3-2.dsc (main)
  • W upstream-metadata-field-unknown Homepage
• libbio-searchio-hmmer-perl_1.7.3-2_all.deb (main)
  • W bad-whatis-entry usr/share/man/man3/Bio::SearchIO::hmmer3.3pm.gz
• libbio-variation-perl 1.7.5-2
• libbio-variation-perl_1.7.5-2_all.deb (main)
  • W bad-whatis-entry usr/share/man/man3/Bio::Variation.3pm.gz
• libdeflate 1.8-1
• libdeflate-tools_1.8-1_amd64.deb (main)
  • W no-manual-page usr/bin/libdeflate-gunzip
  • W no-manual-page usr/bin/libdeflate-gzip
• libgclib 0.12.7+ds-2
• libgclib-dev_0.12.7+ds-2_amd64.deb (main)
  • E no-code-sections usr/lib/x86_64-linux-gnu/libgclib.a (libgclib_la-GAlnExtend.o libgclib_la-GArgs.o libgclib_la-GBase.o libgclib_la-GCdbYank.o libgclib_la-GFaSeqGet.o libgclib_la-GFastaIndex.o libgclib_la-GStr.o libgclib_la-GThreads.o libgclib_la-GapAssem.o libgclib_la-codons.o libgclib_la-gcdb.o libgclib_la-gdna.o libgclib_la-gff.o libgclib_la-gsocket.o libgclib_la-gstopwatch.o)
• libjung-free-java 2.1.1-1
• libjung-free-java_2.1.1-1_all.deb (main)
  • W bad-jar-name usr/share/java/jung-algorithms.jar
  • W bad-jar-name usr/share/java/jung-api.jar
  • W bad-jar-name usr/share/java/jung-graph-impl.jar
  • W bad-jar-name usr/share/java/jung-io.jar
  • W bad-jar-name usr/share/java/jung-samples.jar
  • W bad-jar-name usr/share/java/jung-visualization.jar
• macs 2.2.7.1-5
• macs_2.2.7.1-5_amd64.deb (main)
  • W groff-message usr/share/man/man1/macs2.1.gz (line 1) 8: warning [p 1, 1.7i]: cannot adjust line
  • W groff-message usr/share/man/man1/macs2.1.gz (line 2) 14: warning [p 1, 2.7i]: cannot adjust line
  • W mismatched-override manpage-has-errors-from-man usr/share/man/man1/macs2.1.gz 8: warning [p 1, 1.7i]: cannot adjust line
• mypy 0.910-4
• mypy_0.910-4.dsc (main)
  • W no-nmu-in-changelog
  • W source-nmu-has-incorrect-version-number 0.910-4
• mypy_0.910-4_all.deb (main)
  • W no-manual-page usr/bin/mypyc
  • W no-manual-page usr/bin/stubtest
• python3-mypy_0.910-4_amd64.deb (main)
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/api.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/applytype.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/argmap.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/binder.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/build.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/analysis/dataflow.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/analysis/__init__.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/build.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/cstring.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/emitclass.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/emit.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/emitfunc.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/emitmodule.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/emitwrapper.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/__init__.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/codegen/literals.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/common.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/crash.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/errors.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/checker.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/checkexpr.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/checkmember.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/checkstrformat.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/__init__.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/builder.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/callable_class.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/classdef.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/context.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/env_class.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/expression.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/for_helpers.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/function.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/generator.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/__init__.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/ll_builder.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/main.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/mapper.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/nonlocalcontrol.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/prebuildvisitor.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/prepare.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/specialize.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/statement.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/targets.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/util.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/visitor.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/irbuild/vtable.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/class_ir.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/func_ir.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/__init__.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/module_ir.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/ops.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/pprint.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/ir/rtypes.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/namegen.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/config_parser.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/constraints.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/options.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/primitives/dict_ops.cpython-39-x86_64-linux-gnu.so
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  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypyc/rt_subtype.cpython-39-x86_64-linux-gnu.so
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  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/tvar_scope.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/typeanal.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/typeops.cpython-39-x86_64-linux-gnu.so
  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/types.cpython-39-x86_64-linux-gnu.so
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  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/typevars.cpython-39-x86_64-linux-gnu.so
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  • W shared-library-lacks-prerequisites usr/lib/python3/dist-packages/mypy/visitor.cpython-39-x86_64-linux-gnu.so
• prokka 1.14.6+dfsg-4
• prokka_1.14.6+dfsg-4_amd64.deb (main)
  • W package-contains-vcs-control-file usr/share/prokka/db/cm/__build/.gitignore
  • W script-not-executable usr/share/prokka/db/cm/__build/update.sh
• python3-antlr4 4.9.1-1
• python3-antlr4_4.9.1-1_all.deb (main)
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• python-bx 0.8.9-1
• python3-bx_0.8.9-1_amd64.deb (main)
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  • W no-manual-page usr/bin/axt_to_fasta.py
  • W no-manual-page usr/bin/axt_to_lav.py
  • W no-manual-page usr/bin/axt_to_maf.py
  • W no-manual-page usr/bin/bed_bigwig_profile.py
  • W no-manual-page usr/bin/bed_build_windows.py
  • W no-manual-page usr/bin/bed_complement.py
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  • W no-manual-page usr/bin/bed_coverage_by_interval.py
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  • W no-manual-page usr/bin/bed_diff_basewise_summary.py
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  • W no-manual-page usr/bin/bed_rand_intersect.py
  • W no-manual-page usr/bin/bed_subtract_basewise.py
  • W no-manual-page usr/bin/bnMapper.py
  • W no-manual-page usr/bin/div_snp_table_chr.py
  • W no-manual-page usr/bin/find_in_sorted_file.py
  • W no-manual-page usr/bin/gene_fourfold_sites.py
  • W no-manual-page usr/bin/get_scores_in_intervals.py
  • W no-manual-page usr/bin/interval_count_intersections.py
  • W no-manual-page usr/bin/interval_join.py
  • W no-manual-page usr/bin/int_seqs_to_char_strings.py
  • W no-manual-page usr/bin/lav_to_axt.py
  • W no-manual-page usr/bin/lav_to_maf.py
  • W no-manual-page usr/bin/line_select.py
  • W no-manual-page usr/bin/lzop_build_offset_table.py
  • W no-manual-page usr/bin/maf_build_index.py
  • W no-manual-page usr/bin/maf_chop.py
  • W no-manual-page usr/bin/maf_chunk.py
  • W no-manual-page usr/bin/maf_col_counts_all.py
  • W no-manual-page usr/bin/maf_col_counts.py
  • W no-manual-page usr/bin/maf_count.py
  • W no-manual-page usr/bin/maf_covered_ranges.py
  • W no-manual-page usr/bin/maf_covered_regions.py
  • W no-manual-page usr/bin/maf_div_sites.py
  • W no-manual-page usr/bin/maf_drop_overlapping.py
  • W no-manual-page usr/bin/maf_extract_chrom_ranges.py
  • W no-manual-page usr/bin/maf_extract_ranges_indexed.py
  • W no-manual-page usr/bin/maf_extract_ranges.py
  • W no-manual-page usr/bin/maf_filter_max_wc.py
  • W no-manual-page usr/bin/maf_filter.py
  • W no-manual-page usr/bin/maf_gap_frequency.py
  • W no-manual-page usr/bin/maf_gc_content.py
  • W no-manual-page usr/bin/maf_interval_alignibility.py
  • W no-manual-page usr/bin/maf_limit_to_species.py
  • W no-manual-page usr/bin/maf_mapping_word_frequency.py
  • W no-manual-page usr/bin/maf_mask_cpg.py
  • W no-manual-page usr/bin/maf_mean_length_ungapped_piece.py
  • W no-manual-page usr/bin/maf_percent_columns_matching.py
  • W no-manual-page usr/bin/maf_percent_identity.py
  • W no-manual-page usr/bin/maf_print_chroms.py
  • W no-manual-page usr/bin/maf_print_scores.py
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  • W no-manual-page usr/bin/maf_species_in_all_files.py
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  • W no-manual-page usr/bin/maf_to_int_seqs.py
  • W no-manual-page usr/bin/maf_translate_chars.py
  • W no-manual-page usr/bin/maf_truncate.py
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  • W no-manual-page usr/bin/mMK_bitset.py
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  • W no-manual-page usr/bin/nib_intervals_to_fasta.py
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  • W no-manual-page usr/bin/random_lines.py
  • W no-manual-page usr/bin/table_add_column.py
  • W no-manual-page usr/bin/table_filter.py
  • W no-manual-page usr/bin/tfloc_summary.py
  • W no-manual-page usr/bin/ucsc_gene_table_to_intervals.py
  • W no-manual-page usr/bin/wiggle_to_array_tree.py
  • W no-manual-page usr/bin/wiggle_to_binned_array.py
  • W no-manual-page usr/bin/wiggle_to_chr_binned_array.py
  • W no-manual-page usr/bin/wiggle_to_simple.py
  • W unusual-interpreter python2.4 [usr/lib/python3/dist-packages/bx/pwm/bed_score_aligned_pwm.py]
  • W unusual-interpreter python2.4 [usr/lib/python3/dist-packages/bx/pwm/bed_score_aligned_string.py]
  • W unusual-interpreter python2.4 [usr/lib/python3/dist-packages/bx/pwm/maf_select_motifs.py]
  • W unusual-interpreter python2.4 [usr/lib/python3/dist-packages/bx/pwm/pwm_score_motifs.py]
  • W unusual-interpreter python2.4 [usr/lib/python3/dist-packages/bx/pwm/pwm_score_positions.py]
  • W unusual-interpreter /usr/bin/python2.4 [usr/lib/python3/dist-packages/bx/pwm/pwm_score_maf.py]
• python-bz2file 0.98-3
• python-bz2file_0.98-3.dsc (main)
  • E debian-watch-file-pubkey-file-is-missing
• python-pomegranate 0.13.5-2
• python3-pomegranate_0.13.5-2_amd64.deb (main)
  • E missing-dependency-on-numpy-abi
• python-schema-salad 8.2.20211104054942-1
• python3-schema-salad_8.2.20211104054942-1_all.deb (main)
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/schema_salad/tests/formattest2.cwl
• python-screed 1.0.5-2
• python3-screed_1.0.5-2_all.deb (main)
  • W no-manual-page usr/bin/screed
• python-stubserver 1.1-2
• python-stubserver_1.1-2.dsc (main)
  • W pypi-homepage https://pypi.org/project/stubserver/
• python3-stubserver_1.1-2_all.deb (main)
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/stubserver-1.1.egg-info/dependency_links.txt
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/stubserver-1.1.egg-info/PKG-INFO
  • W executable-not-elf-or-script usr/lib/python3/dist-packages/stubserver-1.1.egg-info/top_level.txt
• rapmap 0.15.0+dfsg-2
• rapmap_0.15.0+dfsg-2_amd64.deb (main)
  • W no-manual-page usr/bin/RunRapMap.sh
  • W spelling-error-in-changelog compatability compatibility
• rapmap-dev_0.15.0+dfsg-2_all.deb (main)
  • W spelling-error-in-changelog compatability compatibility
• rapmap-example-data_0.15.0+dfsg-2_all.deb (main)
  • W spelling-error-in-changelog compatability compatibility
• r-bioc-scrnaseq 2.6.1+ds-2
• r-bioc-scrnaseq_2.6.1+ds-2.dsc (main)
  • W no-nmu-in-changelog
  • W source-nmu-has-incorrect-version-number 2.6.1+ds-2
• r-cran-pscbs 0.66.0-2
• r-cran-pscbs_0.66.0-2_all.deb (main)
  • W national-encoding usr/lib/R/site-library/PSCBS/NEWS
• r-cran-rook 1.1-1+dfsg-3
• r-cran-rook_1.1-1+dfsg-3_amd64.deb (main)
  • E library-not-linked-against-libc usr/lib/R/site-library/Rook/libs/Rook.so
• r-cran-sna 2.6-1
• r-cran-sna_2.6-1.dsc (main)
  • W no-nmu-in-changelog
  • W source-nmu-has-incorrect-version-number 2.6-1
• rsem 1.3.3+dfsg-2
• rsem_1.3.3+dfsg-2_amd64.deb (main)
  • W no-manual-page usr/bin/extract-transcript-to-gene-map-from-trinity
  • W no-manual-page usr/bin/rsem-bam2readdepth
  • W no-manual-page usr/bin/rsem-build-read-index
  • W no-manual-page usr/bin/rsem-calculate-credibility-intervals
  • W no-manual-page usr/bin/rsem-extract-reference-transcripts
  • W no-manual-page usr/bin/rsem-generate-data-matrix
  • W no-manual-page usr/bin/rsem-gen-transcript-plots
  • W no-manual-page usr/bin/rsem-get-unique
  • W no-manual-page usr/bin/rsem-parse-alignments
  • W no-manual-page usr/bin/rsem_perl_utils.pm
  • W no-manual-page usr/bin/rsem-plot-model
  • W no-manual-page usr/bin/rsem-preref
  • W no-manual-page usr/bin/rsem-refseq-extract-primary-assembly
  • W no-manual-page usr/bin/rsem-run-em
  • W no-manual-page usr/bin/rsem-run-gibbs
  • W no-manual-page usr/bin/rsem-sam-validator
  • W no-manual-page usr/bin/rsem-scan-for-paired-end-reads
  • W no-manual-page usr/bin/rsem-synthesis-reference-transcripts
  • W no-manual-page usr/bin/rsem-tbam2gbam
• ruamel.yaml.clib 0.2.6-1
• python3-ruamel.yaml.clib_0.2.6-1_amd64.deb (main)
  • E embedded-library libyaml usr/lib/python3/dist-packages/_ruamel_yaml.cpython-39-x86_64-linux-gnu.so
  • W mismatched-override embedded-library usr/lib/python3/dist-packages/_ruamel_yaml.cpython-*.so: libyaml
• ruby-colorize 0.8.1-1
• ruby-colorize_0.8.1-1.dsc (main)
  • W package-uses-deprecated-debhelper-compat-version 9
  • W vcs-obsolete-in-debian-infrastructure Browser https://anonscm.debian.org/cgit/pkg-ruby-extras/ruby-colorize.git
  • W vcs-obsolete-in-debian-infrastructure Git https://anonscm.debian.org/git/pkg-ruby-extras/ruby-colorize.git
• ruby-colorize_0.8.1-1_all.deb (main)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• ruby-crb-blast 0.6.9-4
• ruby-crb-blast_0.6.9-4_all.deb (main)
  • E ruby-script-but-no-ruby-dep /usr/bin/ruby [usr/bin/crb-blast] (does not satisfy ruby:any)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• ruby-facade 1.2.1-1
• ruby-facade_1.2.1-1_all.deb (main)
  • W description-synopsis-starts-with-article
• ruby-fix-trinity-output 1.0.0-2
• ruby-fix-trinity-output_1.0.0-2.dsc (main)
  • W rubygem-homepage http://rubygems.org/gems/fix-trinity-output
• ruby-fix-trinity-output_1.0.0-2_all.deb (main)
  • E ruby-script-but-no-ruby-dep /usr/bin/ruby [usr/bin/fix-trinity-output] (does not satisfy ruby:any)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• ruby-fixwhich 1.0.2-2
• ruby-fixwhich_1.0.2-2_all.deb (main)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• ruby-threach 0.2.0-2
• ruby-threach_0.2.0-2_all.deb (main)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• ruby-yell 2.2.2-1
• ruby-yell_2.2.2-1_all.deb (main)
  • W ruby-interpreter-is-deprecated ruby | ruby-interpreter
• rust-capstone 0.7.0-3
• librust-capstone-dev_0.7.0-3_amd64.deb (main)
  • W executable-not-elf-or-script usr/share/cargo/registry/capstone-0.7.0/examples/darwin
• rust-elfx86exts 0.3.0-4
• elfx86exts_0.3.0-4_amd64.deb (main)
  • W no-manual-page usr/bin/elfx86exts
• sga 0.10.15-7
• sga_0.10.15-7_amd64.deb (main)
  • W privacy-breach-generic usr/share/doc/sga/index.html [<img border="0" width="90" src="http://github.com/images/modules/download/tar.png">] (http://github.com/images/modules/download/tar.png)
  • W privacy-breach-generic usr/share/doc/sga/index.html [<img border="0" width="90" src="http://github.com/images/modules/download/zip.png">] (http://github.com/images/modules/download/zip.png)
• spades 3.13.1+dfsg-2
• spades_3.13.1+dfsg-2.dsc (main)
  • W globbing-patterns-out-of-order debian/copyright assembler/ext/src/samtools/bcftools/kmin.* assembler/ext/src/samtools/* assembler/ext/src/samtools/bcftools/kmin.c
  • W globbing-patterns-out-of-order debian/copyright assembler/ext/src/samtools/bcftools/kmin.* assembler/ext/src/samtools/* assembler/ext/src/samtools/bcftools/kmin.h
  • W superfluous-file-pattern debian/copyright assembler/ext/src/samtools/bcftools/kmin.* (Files, line 166)
• spades_3.13.1+dfsg-2+b2_amd64.deb (main)
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset/ecoli_1K_1.fq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset/ecoli_1K_2.fq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_plasmid/pl1.fq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_plasmid/pl2.fq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset/reference_1K.fa.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_truspades/A_R1.fastq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_truspades/A_R2.fastq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_truspades/B_R1.fastq.gz 2020-11-19T01:35:41
  • W package-contains-timestamped-gzip usr/share/spades/test_dataset_truspades/B_R2.fastq.gz 2020-11-19T01:35:41
• staden-io-lib 1.14.14+dfsg-1
• libstaden-read-dev_1.14.14+dfsg-1_amd64.deb (main)
  • W no-manual-page usr/bin/io_lib-config
• staden-io-lib-examples_1.14.14+dfsg-1_all.deb (main)
  • W zero-byte-file-in-doc-directory usr/share/doc/staden-io-lib/test/data/xx#blank.sam
• staden-io-lib-utils_1.14.14+dfsg-1_amd64.deb (main)
  • W no-manual-page usr/bin/convert_trace
  • W no-manual-page usr/bin/cram_dump
  • W no-manual-page usr/bin/cram_filter
  • W no-manual-page usr/bin/cram_index
  • W no-manual-page usr/bin/cram_size
  • W no-manual-page usr/bin/extract_fastq
  • W no-manual-page usr/bin/extract_qual
  • W no-manual-page usr/bin/extract_seq
  • W no-manual-page usr/bin/get_comment
  • W no-manual-page usr/bin/hash_exp
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  • W no-manual-page usr/bin/scram_flagstat
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  • W no-manual-page usr/bin/srf_extract_hash
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  • W no-manual-page usr/bin/trace_dump
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• toil 5.5.0-7
• toil_5.5.0-7_all.deb (main)
  • W no-manual-page usr/bin/toil-cwl-runner
  • W no-manual-page usr/bin/_toil_kubernetes_executor
  • W no-manual-page usr/bin/toil-wdl-runner
  • W script-not-executable usr/lib/python3/dist-packages/toil/test/cwl/alwaysfails.cwl
  • W script-not-executable usr/lib/python3/dist-packages/toil/test/cwl/mpi_simple.cwl
• trinityrnaseq 2.13.2+dfsg-3
• trinityrnaseq_2.13.2+dfsg-3.dsc (main)
  • W build-depends-on-1-revision Build-Depends: libjung-free-java (>= 2.1.1-1)
  • W configure-generated-file-in-source trinity-plugins/ParaFly/config.log
  • W configure-generated-file-in-source trinity-plugins/ParaFly/config.status
• trinityrnaseq_2.13.2+dfsg-3_amd64.deb (main)
  • W bad-jar-name usr/share/java/Butterfly-2.13.2.jar
  • W executable-not-elf-or-script usr/lib/trinityrnaseq/util/misc/SAM_to_bed.pl
  • W no-manual-page usr/bin/BubbleUpClustering
  • W no-manual-page usr/bin/Chrysalis
  • W no-manual-page usr/bin/CreateIwormFastaBundle
  • W no-manual-page usr/bin/FastaToDeBruijn
  • W no-manual-page usr/bin/fastaToKmerCoverageStats
  • W no-manual-page usr/bin/GraphFromFasta
  • W no-manual-page usr/bin/inchworm
  • W no-manual-page usr/bin/QuantifyGraph
  • W no-manual-page usr/bin/ReadsToTranscripts
• uncalled 2.2+ds-2
• uncalled_2.2+ds-2_amd64.deb (main)
  • W no-manual-page usr/bin/uncalled
• vg 1.30.0+ds-1
• vg_1.30.0+ds-1+b1_amd64.deb (main)
  • E malformed-override Expected a colon in line 5