Debian Med Packaging Team
At the time of the last Lintian run, the following possible problems were found in packages maintained by Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>, listed by source package. See also the full report, including info, experimental and overridden tags. Also see their QA overview.
-
W syntax-error-in-dep5-copyright
- line 9: Continuation line outside a paragraph.
abacas
-
W manpage-has-errors-from-man
- usr/share/man/man1/abacas.1.gz 20: warning [p 1, 3.0i, div `an-div', 0.0i]: cannot adjust line
-
W ancient-standards-version
- 3.8.3 (current is 3.9.3)
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
ampliconnoise
bedtools
-
W binary-without-manpage
- usr/bin/annotateBed
- usr/bin/bamToBed
- usr/bin/bamToFastq
- usr/bin/bed12ToBed6
- usr/bin/bedToBam
- usr/bin/bedToIgv
- usr/bin/bedpeToBam
- usr/bin/bedtools
- usr/bin/closestBed
- usr/bin/clusterBed
- usr/bin/complementBed
- usr/bin/coverageBed
- usr/bin/expandCols
- usr/bin/fastaFromBed
- usr/bin/flankBed
- usr/bin/genomeCoverageBed
- usr/bin/getOverlap
- usr/bin/intersectBed
- usr/bin/linksBed
- usr/bin/mapBed
- usr/bin/maskFastaFromBed
- usr/bin/mergeBed
- usr/bin/multiBamCov
- usr/bin/multiIntersectBed
- usr/bin/nucBed
- usr/bin/pairToBed
- usr/bin/pairToPair
- usr/bin/randomBed
- usr/bin/shuffleBed
- usr/bin/slopBed
- usr/bin/sortBed
- usr/bin/subtractBed
- usr/bin/tagBam
- usr/bin/unionBedGraphs
- usr/bin/windowBed
- usr/bin/windowMaker
-
W executable-not-elf-or-script
- usr/share/bedtools/genomes/human.hg18.genome
- usr/share/bedtools/genomes/human.hg19.genome
- usr/share/bedtools/genomes/mouse.mm8.genome
- usr/share/bedtools/genomes/mouse.mm9.genome
biomaj-watcher
-
W codeless-jar
- usr/share/java/webapps/biomaj-watcher/WEB-INF/lib/smartgwt-skins.jar
-
W embedded-javascript-library
- usr/share/java/webapps/biomaj-watcher/resources/flash/swfobject.js
-
W menu-command-not-in-package
- usr/share/menu/biomaj-watcher:1 x-www-browser
-
W missing-classpath
- liblog4j1.2-java, libjsch-java, libjdom1-java, libcommons-lang-java, libcommons-logging-java, libquartz-java, libxerces2-java, libgnumail-java
bioperl
-
W binary-without-manpage
- usr/bin/bp_das_server
- usr/bin/bp_seqfeature_delete
- usr/bin/bp_seqfeature_gff3
-
W manpage-has-bad-whatis-entry
- usr/share/man/man1/bp_netinstall.1p.gz
libbio-perl-perl
-
W manpage-has-bad-whatis-entry
- usr/share/man/man3/Bio::OntologyIO::Handlers::BaseSAXHandler.3pm.gz
- usr/share/man/man3/Bio::Tools::SeqPattern::Backtranslate.3pm.gz
- usr/share/man/man3/Bio::TreeIO::NewickParser.3pm.gz
-
W manpage-has-errors-from-man
- usr/share/man/man3/Bio::SeqIO::bsml.3pm.gz 352: warning [p 4, 0.2i]: can't break line
bioperl-run
-
W script-with-language-extension
- usr/bin/bp_bioperl_application_installer.pl
- usr/bin/bp_multi_hmmsearch.pl
- usr/bin/bp_panalysis.pl
- usr/bin/bp_papplmaker.pl
- usr/bin/bp_run_neighbor.pl
- usr/bin/bp_run_protdist.pl
libbio-perl-run-perl
-
W manpage-has-bad-whatis-entry
- usr/share/man/man3/Bio::Tools::Run::Alignment::Blat.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Alignment::Exonerate.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Phylo::Phylip::PhylipConf.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Primate.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Prints.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Profile.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Signalp.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::TribeMCL.3pm.gz
- usr/share/man/man3/Bio::Tools::Run::Vista.3pm.gz
-
W manpage-has-errors-from-pod2man
- usr/share/man/man3/Bio::DB::SoapEUtilities::Result.3pm.gz:410
-
W ancient-standards-version
- 3.7.3 (current is 3.9.3)
-
W debian-rules-uses-deprecated-makefile
- line 3 /usr/share/cdbs/1/rules/simple-patchsys.mk
-
W debian-watch-file-should-use-sf-redirector
- line 4
-
W package-needs-versioned-debhelper-build-depends
- 9
bwa
-
W manpage-has-errors-from-man
- usr/share/man/man1/bwa.1.gz around line 328: table wider than line width
cain
-
W binary-without-manpage
- usr/bin/cain
r-cran-catools
-
W executable-not-elf-or-script
- usr/lib/R/site-library/caTools/DESCRIPTION
cd-hit
-
W binary-without-manpage
- usr/bin/cd-hit-div
- usr/bin/clstr2tree
- usr/bin/clstr_merge
- usr/bin/clstr_merge_noorder
- usr/bin/clstr_reduce
- usr/bin/clstr_renumber
- usr/bin/clstr_rev
- usr/bin/clstr_sort_by
- usr/bin/clstr_sort_prot_by
- usr/bin/make_multi_seq
- usr/bin/psi-cd-hit-local
circos
-
W manpage-has-bad-whatis-entry
- usr/share/man/man1/circos.1.gz
-
W debian-rules-uses-deprecated-makefile
- line 3 /usr/share/cdbs/1/rules/simple-patchsys.mk
-
W ancient-standards-version
- 3.8.0 (current is 3.9.3)
-
W changelog-should-mention-nmu
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
-
W source-nmu-has-incorrect-version-number
- 3.0.6-13
ctn (3.0.6-13+b1; main)
-
W executable-not-elf-or-script
- usr/share/doc/ctn/examples/start_his_server
- usr/share/doc/ctn/examples/start_img_client
- usr/share/doc/ctn/examples/start_img_displays
- usr/share/doc/ctn/examples/start_pacs_client
- usr/share/doc/ctn/examples/start_pacs_server
- usr/share/doc/ctn/examples/start_print_client
- usr/share/doc/ctn/examples/stop_img_displays
-
W ancient-standards-version
- 3.8.0 (current is 3.9.3)
-
W changelog-should-mention-nmu
-
W debhelper-but-no-misc-depends
- ctn-doc
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
-
W source-nmu-has-incorrect-version-number
- 3.0.6-3
ctn-doc
dcmtk
-
W duplicate-changelog-files
- usr/share/doc/dcmtk/CHANGES.360.gz usr/share/doc/dcmtk/changelog.gz
med-bio
-
W maintainer-script-empty
- postrm
- preinst
med-bio-dev
-
W maintainer-script-empty
- postrm
- preinst
med-cloud
-
W maintainer-script-empty
- postrm
- preinst
med-data
-
W maintainer-script-empty
- postrm
- preinst
med-dental
-
W maintainer-script-empty
- postrm
- preinst
med-epi
-
W maintainer-script-empty
- postrm
- preinst
med-imaging
-
W maintainer-script-empty
- postrm
- preinst
med-imaging-dev
-
W maintainer-script-empty
- postrm
- preinst
med-oncology
-
W maintainer-script-empty
- postrm
- preinst
med-pharmacy
-
W maintainer-script-empty
- postrm
- preinst
med-physics
-
W maintainer-script-empty
- postrm
- preinst
med-practice
-
W maintainer-script-empty
- postrm
- preinst
med-psychology
-
W maintainer-script-empty
- postrm
- preinst
med-rehabilitation
-
W maintainer-script-empty
- postrm
- preinst
med-statistics
-
W maintainer-script-empty
- postrm
- preinst
med-tools
-
W maintainer-script-empty
- postrm
- preinst
med-typesetting
-
W maintainer-script-empty
- postrm
- preinst
embassy-domainatrix
embassy-domalign
embassy-domsearch
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
-
W no-debian-copyright
-
W package-would-benefit-from-build-arch-targets
emboss (6.3.1-6+b1; main)
-
W binary-without-manpage
- usr/bin/acdgalaxy
- usr/bin/jembossctl
-
W description-synopsis-starts-with-article
-
W spelling-error-in-readme-debian
- developper developer
emboss-lib (6.3.1-6+b1; main)
-
E embedded-library
- usr/lib/emboss/lib/libepcre.so.7.0.9: pcre3
-
W postinst-has-useless-call-to-ldconfig
-
W postrm-has-useless-call-to-ldconfig
emboss-test
-
W csh-considered-harmful
- usr/share/EMBOSS/test/memtest/purify.csh
- usr/share/EMBOSS/test/memtest/valgrind.csh
- usr/share/EMBOSS/test/qa/qatest.csh
-
W executable-not-elf-or-script
- usr/share/EMBOSS/test/data/structure/1cs4.ent
- usr/share/EMBOSS/test/data/structure/1ii7.ent
- usr/share/EMBOSS/test/data/structure/pdb/1cs4.ent
- usr/share/EMBOSS/test/data/swsplit
- usr/share/EMBOSS/test/data/wormpep.clone.ZK637
- usr/share/EMBOSS/test/data/xb63c7.s1.exp
-
W package-contains-vcs-control-file
- usr/share/EMBOSS/test/.cvsignore
- usr/share/EMBOSS/test/data/.cvsignore
- usr/share/EMBOSS/test/data/structure/.cvsignore
- usr/share/EMBOSS/test/embl/.cvsignore
- usr/share/EMBOSS/test/genbank/.cvsignore
- usr/share/EMBOSS/test/pir/.cvsignore
- usr/share/EMBOSS/test/qa/.cvsignore
- usr/share/EMBOSS/test/swiss/.cvsignore
- usr/share/EMBOSS/test/swnew/.cvsignore
- usr/share/EMBOSS/test/testdb/.cvsignore
jemboss
-
W binary-without-manpage
- usr/bin/runJemboss.csh
-
W classpath-contains-relative-path
- usr/share/EMBOSS/jemboss/lib/jemboss.jar: lib/jakarta-regexp-1.2.jar, lib/jalviewApplet.jar
-
W codeless-jar
- usr/share/EMBOSS/jemboss/resources/acdstore.jar
- usr/share/EMBOSS/jemboss/resources/resources.jar
-
W csh-considered-harmful
- usr/bin/runJemboss.csh
-
W script-not-executable
- usr/share/EMBOSS/jemboss/utils/install-jemboss-server.sh
- usr/share/EMBOSS/jemboss/utils/keys.sh
- usr/share/EMBOSS/jemboss/utils/makeFileManagerJNLP.sh
- usr/share/EMBOSS/jemboss/utils/makeJNLP.sh
- usr/share/EMBOSS/jemboss/utils/makeJar.csh
-
W script-with-language-extension
- usr/bin/runJemboss.csh
-
W ancient-standards-version
- 3.8.0 (current is 3.9.3)
-
E build-depends-on-obsolete-package
- build-depends: dpatch
-
W debhelper-but-no-misc-depends
- emboss-explorer
- libemboss-acd-perl
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
-
W dh-clean-k-is-deprecated
-
W dh_desktop-is-deprecated
- line 66
emboss-explorer
-
W duplicate-changelog-files
- usr/share/doc/emboss-explorer/changelog.Debian.gz usr/share/doc/emboss-explorer/changelog.gz
-
W manpage-has-bad-whatis-entry
- usr/share/man/man1/acdcheck.1p.gz
- usr/share/man/man1/mkstatic.1p.gz
-
W manpage-has-errors-from-pod2man
- usr/share/man/man1/acdcheck.1p.gz:157
- usr/share/man/man1/mkstatic.1p.gz:160
libemboss-acd-perl
-
W duplicate-changelog-files
- usr/share/doc/libemboss-acd-perl/changelog.Debian.gz usr/share/doc/libemboss-acd-perl/changelog.gz
exonerate
-
W binary-without-manpage
- usr/bin/esd2esi
-
W manpage-has-errors-from-man
- usr/share/man/man1/exonerate-server.1.gz 78: warning: macro `T' not defined
- usr/share/man/man1/exonerate.1.gz 48: warning: macro `SP' not defined
- usr/share/man/man1/fastautils.1.gz 75: warning: macro `L' not defined
- usr/share/man/man1/ipcress.1.gz 70: warning: macro `SP' not defined
fastx-toolkit
-
W manpage-has-errors-from-man
- usr/share/man/man1/fastx_barcode_splitter.pl.1.gz 59: warning [p 1, 11.0i]: cannot adjust line
-
W script-with-language-extension
- usr/bin/fasta_clipping_histogram.pl
- usr/bin/fastq_quality_boxplot_graph.sh
- usr/bin/fastx_barcode_splitter.pl
- usr/bin/fastx_nucleotide_distribution_graph.sh
- usr/bin/fastx_nucleotide_distribution_line_graph.sh
-
W missing-license-paragraph-in-dep5-copyright
- lgpl (paragraph at line 30)
figtree
-
E executable-jar-without-main-class
- usr/share/java/figtree.jar
-
W executable-not-elf-or-script
- usr/share/java/figtree.jar
filo
-
W binary-without-manpage
- usr/bin/groupBy
freemedforms-libs
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
-
W out-of-date-standards-version
- 3.9.1 (current is 3.9.3)
libg20
-
W package-name-doesnt-match-sonames
- libg2-0.72
gentle
-
W copyright-refers-to-versionless-license-file
- usr/share/common-licenses/LGPL
-
W ancient-standards-version
- 3.7.3 (current is 3.9.3)
-
W debhelper-compat-file-is-missing
-
W patch-system-but-no-source-readme
-
W quilt-build-dep-but-no-series-file
glam2
-
W syntax-error-in-dep5-copyright
- line 12: Continuation line outside a paragraph.
libgofigure0 (0.9.0-1+b2; main)
-
W package-name-doesnt-match-sonames
- libPoissonReconstruction0.9 libQGoGui0.9 libQGoIO0.9 libctk0.9 libitkQt0.9 libvtkLSMReader0.9 libvtkRenderingAddOn2-0.9
-
W comma-separated-files-in-dep5-copyright
- paragraph at line 318
hmmer
-
W manpage-has-errors-from-man
- usr/share/man/man1/hmmsim.1.gz 256: warning: macro `fs'' not defined
infernal-dbg
-
W debug-package-should-be-priority-extra
- infernal-dbg
-
W missing-field-in-dep5-copyright
- license (paragraph at line 6)
-
W missing-field-in-dep5-copyright
- license (paragraph at line 6)
-
W ancient-standards-version
- 3.8.2 (current is 3.9.3)
-
W debhelper-overrides-need-versioned-build-depends
- (>= 7.0.50~)
-
W debian-rules-missing-recommended-target
- build-arch
- build-indep
libace-perl (1.92-2+b2; main)
-
E empty-manual-page
- usr/share/man/man1/ace.1p.gz
-
W manpage-has-bad-whatis-entry
- usr/share/man/man1/ace.1p.gz
-
W manpage-has-errors-from-pod2man
- usr/share/man/man3/Ace.3pm.gz:1248
- usr/share/man/man3/Ace::Graphics::GlyphFactory.3pm.gz:244
- usr/share/man/man3/Ace::Sequence::GappedAlignment.3pm.gz:209
- usr/share/man/man3/Ace::Sequence::Gene.3pm.gz:222
- usr/share/man/man3/Ace::Sequence::Transcript.3pm.gz:222
-
W debhelper-but-no-misc-depends
- libai-fann-perl
libbio-graphics-perl
-
W binary-without-manpage
- usr/bin/glyph_help.pl
- usr/bin/render_msa.pl
-
W executable-not-elf-or-script
- usr/share/doc/libbio-graphics-perl/examples/feature_data.gff
- usr/share/doc/libbio-graphics-perl/examples/feature_data.txt
-
W manpage-has-bad-whatis-entry
- usr/share/man/man3/Bio::Graphics::Wiggle::Loader.3pm.gz
-
W manpage-has-errors-from-man
- usr/share/man/man3/Bio::Graphics::Glyph::hybrid_plot.3pm.gz 156: warning [p 1, 5.5i]: can't break line
- usr/share/man/man3/Bio::Graphics::Glyph::ideogram.3pm.gz 297: warning [p 3, 2.5i]: can't break line
- usr/share/man/man3/Bio::Graphics::Glyph::vista_plot.3pm.gz 164: warning [p 1, 6.5i]: can't break line
-
W manpage-has-errors-from-pod2man
- usr/share/man/man3/Bio::Graphics::FeatureDir.3pm.gz:217
-
W script-with-language-extension
- usr/bin/contig_draw.pl
- usr/bin/feature_draw.pl
- usr/bin/frend.pl
- usr/bin/glyph_help.pl
- usr/bin/render_msa.pl
- usr/bin/search_overview.pl
-
W ancient-standards-version
- 3.8.4 (current is 3.9.3)
-
W debian-rules-uses-deprecated-makefile
- line 4 /usr/share/cdbs/1/class/perlmodule.mk
libbio-mage-perl
-
W manpage-has-bad-whatis-entry
- usr/share/man/man3/Bio::MAGE::Association.3pm.gz
-
W manpage-has-errors-from-pod2man
- usr/share/man/man3/Bio::MAGE::Array::Array.3pm.gz:1126
- usr/share/man/man3/Bio::MAGE::Array::ArrayGroup.3pm.gz:1323
- usr/share/man/man3/Bio::MAGE::Array::ArrayManufacture.3pm.gz:1135
- usr/share/man/man3/Bio::MAGE::Array::ArrayManufactureDeviation.3pm.gz:608
- usr/share/man/man3/Bio::MAGE::Array::FeatureDefect.3pm.gz:629
- usr/share/man/man3/Bio::MAGE::Array::Fiducial.3pm.gz:796
- usr/share/man/man3/Bio::MAGE::Array::ManufactureLIMS.3pm.gz:845
- usr/share/man/man3/Bio::MAGE::Array::ManufactureLIMSBiomaterial.3pm.gz:976
- usr/share/man/man3/Bio::MAGE::Array::PositionDelta.3pm.gz:625
- usr/share/man/man3/Bio::MAGE::Array::ZoneDefect.3pm.gz:629
- usr/share/man/man3/Bio::MAGE::ArrayDesign::ArrayDesign.3pm.gz:1139
- usr/share/man/man3/Bio::MAGE::ArrayDesign::CompositeGroup.3pm.gz:912
- usr/share/man/man3/Bio::MAGE::ArrayDesign::DesignElementGroup.3pm.gz:856
- usr/share/man/man3/Bio::MAGE::ArrayDesign::FeatureGroup.3pm.gz:1188
- usr/share/man/man3/Bio::MAGE::ArrayDesign::PhysicalArrayDesign.3pm.gz:1242
- usr/share/man/man3/Bio::MAGE::ArrayDesign::ReporterGroup.3pm.gz:912
- usr/share/man/man3/Bio::MAGE::ArrayDesign::Zone.3pm.gz:1062
- usr/share/man/man3/Bio::MAGE::ArrayDesign::ZoneGroup.3pm.gz:822
- usr/share/man/man3/Bio::MAGE::ArrayDesign::ZoneLayout.3pm.gz:715
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::Audit.3pm.gz:794
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::Contact.3pm.gz:1060
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::Organization.3pm.gz:1110
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::Person.3pm.gz:1239
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::Security.3pm.gz:865
- usr/share/man/man3/Bio::MAGE::AuditAndSecurity::SecurityGroup.3pm.gz:805
- usr/share/man/man3/Bio::MAGE::BQS::BibliographicReference.3pm.gz:1205
- usr/share/man/man3/Bio::MAGE::BioAssay::BioAssay.3pm.gz:869
- usr/share/man/man3/Bio::MAGE::BioAssay::BioAssayCreation.3pm.gz:963
- usr/share/man/man3/Bio::MAGE::BioAssay::BioAssayTreatment.3pm.gz:903
- usr/share/man/man3/Bio::MAGE::BioAssay::Channel.3pm.gz:805
- usr/share/man/man3/Bio::MAGE::BioAssay::DerivedBioAssay.3pm.gz:1032
- usr/share/man/man3/Bio::MAGE::BioAssay::FeatureExtraction.3pm.gz:899
- usr/share/man/man3/Bio::MAGE::BioAssay::Hybridization.3pm.gz:959
- usr/share/man/man3/Bio::MAGE::BioAssay::Image.3pm.gz:897
- usr/share/man/man3/Bio::MAGE::BioAssay::ImageAcquisition.3pm.gz:959
- usr/share/man/man3/Bio::MAGE::BioAssay::MeasuredBioAssay.3pm.gz:972
- usr/share/man/man3/Bio::MAGE::BioAssay::PhysicalBioAssay.3pm.gz:1032
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioAssayData.3pm.gz:992
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioAssayDatum.3pm.gz:674
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioAssayDimension.3pm.gz:805
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioAssayMap.3pm.gz:912
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioAssayMapping.3pm.gz:548
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioDataCube.3pm.gz:580
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioDataTuples.3pm.gz:548
- usr/share/man/man3/Bio::MAGE::BioAssayData::BioDataValues.3pm.gz:497
- usr/share/man/man3/Bio::MAGE::BioAssayData::CompositeSequenceDimension.3pm.gz:805
- usr/share/man/man3/Bio::MAGE::BioAssayData::DerivedBioAssayData.3pm.gz:1040
- usr/share/man/man3/Bio::MAGE::BioAssayData::DesignElementDimension.3pm.gz:751
- usr/share/man/man3/Bio::MAGE::BioAssayData::DesignElementMap.3pm.gz:810
- usr/share/man/man3/Bio::MAGE::BioAssayData::DesignElementMapping.3pm.gz:548
- usr/share/man/man3/Bio::MAGE::BioAssayData::FeatureDimension.3pm.gz:805
- usr/share/man/man3/Bio::MAGE::BioAssayData::MeasuredBioAssayData.3pm.gz:993
- usr/share/man/man3/Bio::MAGE::BioAssayData::QuantitationTypeDimension.3pm.gz:805
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W ancient-standards-version
- 3.8.3 (current is 3.9.3)
-
W debian-watch-file-should-mangle-version
- line 2
libstaden-read-dev
-
W binary-without-manpage
- usr/bin/io_lib-config
staden-io-lib-utils
-
W binary-without-manpage
- usr/bin/append_sff
- usr/bin/convert_trace
- usr/bin/extract_fastq
- usr/bin/extract_qual
- usr/bin/extract_seq
- usr/bin/get_comment
- usr/bin/hash_extract
- usr/bin/hash_list
- usr/bin/hash_sff
- usr/bin/hash_tar
- usr/bin/index_tar
- usr/bin/makeSCF
- usr/bin/scf_dump
- usr/bin/scf_info
- usr/bin/scf_update
- usr/bin/srf_dump_all
- usr/bin/srf_extract_hash
- usr/bin/srf_extract_linear
- usr/bin/srf_filter
- usr/bin/trace_dump
- usr/bin/ztr_dump
t-coffee
-
W spelling-error-in-description
- allows to allows one to
t-coffee-doc
tabix
-
W manpage-has-errors-from-man
- usr/share/man/man1/tabix.1.gz `R' is a string (producing the registered sign), not a macro.
-
W ancient-standards-version
- 3.8.3 (current is 3.9.3)
tophat
-
W binary-without-manpage
- usr/bin/bam_merge
- usr/bin/bed_to_juncs
- usr/bin/closure_juncs
- usr/bin/contig_to_chr_coords
- usr/bin/fix_map_ordering
- usr/bin/gtf_juncs
- usr/bin/gtf_to_fasta
- usr/bin/juncs_db
- usr/bin/long_spanning_reads
- usr/bin/map2gtf
- usr/bin/prep_reads
- usr/bin/sam_juncs
- usr/bin/segment_juncs
- usr/bin/sra_to_solid
- usr/bin/tophat-fusion-post
- usr/bin/tophat2
- usr/bin/tophat_reports
velvet
-
W extra-license-file
- usr/share/velvet/contrib/MetaVelvet-v0.3.1/LICENSE.txt
-
E python-script-but-no-python-dep
- usr/share/velvet/contrib/MetaVelvet-v0.3.1/scriptEstimatedCovMulti.py
- usr/share/velvet/contrib/MetaVelvet-v0.3.1/shuffleAndConvertSequences_fastq2fasta.py
-
W ancient-standards-version
- 3.8.3 (current is 3.9.3)
libvolpack1-dev
-
W manpage-has-errors-from-man
- usr/share/man/man3/BruteForce.3.gz <standard input>:71:fatal error: output error
- usr/share/man/man3/Callback.3.gz <standard input>:228:fatal error: output error
- usr/share/man/man3/ClientData.3.gz <standard input>:79:fatal error: output error
- usr/share/man/man3/ClsfyScalar.3.gz <standard input>:126:fatal error: output error
- usr/share/man/man3/ClsfyScan.3.gz <standard input>:107:fatal error: output error
- usr/share/man/man3/ClsfyTable.3.gz <standard input>:155:fatal error: output error
- usr/share/man/man3/ClsfyVolume.3.gz <standard input>:137:fatal error: output error
- usr/share/man/man3/Context.3.gz <standard input>:82:fatal error: output error
- usr/share/man/man3/CurrentMatrix.3.gz <standard input>:126:fatal error: output error
- usr/share/man/man3/Debug.3.gz <standard input>:114:fatal error: output error
- usr/share/man/man3/DepthCueing.3.gz <standard input>:138:fatal error: output error
- usr/share/man/man3/Enable.3.gz <standard input>:119:fatal error: output error
- usr/share/man/man3/Error.3.gz <standard input>:86:fatal error: output error
- usr/share/man/man3/Extract.3.gz <standard input>:184:fatal error: output error
- usr/share/man/man3/Filter.3.gz <standard input>:124:fatal error: output error
- usr/share/man/man3/FilterTab.3.gz <standard input>:158:fatal error: output error
- usr/share/man/man3/Get.3.gz <standard input>:337:fatal error: output error
- usr/share/man/man3/GetImage.3.gz <standard input>:130:fatal error: output error
- usr/share/man/man3/GetLight.3.gz <standard input>:93:fatal error: output error
- usr/share/man/man3/GetMaterial.3.gz <standard input>:101:fatal error: output error
- usr/share/man/man3/GetMatrix.3.gz <standard input>:86:fatal error: output error
- usr/share/man/man3/Identity.3.gz <standard input>:74:fatal error: output error
- usr/share/man/man3/Image.3.gz <standard input>:152:fatal error: output error
- usr/share/man/man3/Light.3.gz <standard input>:138:fatal error: output error
- usr/share/man/man3/LinAlgebra.3.gz <standard input>:177:fatal error: output error
- usr/share/man/man3/Load.3.gz <standard input>:181:fatal error: output error
- usr/share/man/man3/LookupShader.3.gz <standard input>:219:fatal error: output error
- usr/share/man/man3/Material.3.gz <standard input>:178:fatal error: output error
- usr/share/man/man3/MinMaxOctree.3.gz <standard input>:172:fatal error: output error
- usr/share/man/man3/MultMatrix.3.gz <standard input>:86:fatal error: output error
- usr/share/man/man3/NormalIndex.3.gz <standard input>:116:fatal error: output error
- usr/share/man/man3/OctreeMask.3.gz <standard input>:121:fatal error: output error
- usr/share/man/man3/Ramp.3.gz <standard input>:107:fatal error: output error
- usr/share/man/man3/RawVoxels.3.gz <standard input>:115:fatal error: output error
- usr/share/man/man3/Render.3.gz <standard input>:156:fatal error: output error
- usr/share/man/man3/Resample.3.gz <standard input>:200:fatal error: output error
- usr/share/man/man3/Rotate.3.gz <standard input>:141:fatal error: output error
- usr/share/man/man3/Scale.3.gz <standard input>:104:fatal error: output error
- usr/share/man/man3/ScanNormals.3.gz <standard input>:159:fatal error: output error
- usr/share/man/man3/Set.3.gz <standard input>:157:fatal error: output error
- usr/share/man/man3/SetMatrix.3.gz <standard input>:80:fatal error: output error
- usr/share/man/man3/ShadeTable.3.gz <standard input>:106:fatal error: output error
- usr/share/man/man3/Shadow.3.gz <standard input>:222:fatal error: output error
- usr/share/man/man3/Store.3.gz <standard input>:138:fatal error: output error
- usr/share/man/man3/Timer.3.gz <standard input>:140:fatal error: output error
- usr/share/man/man3/TracePixel.3.gz <standard input>:81:fatal error: output error
- usr/share/man/man3/Translate.3.gz <standard input>:101:fatal error: output error
- usr/share/man/man3/Transpose.3.gz <standard input>:100:fatal error: output error
- usr/share/man/man3/VolPack.3.gz <standard input>:260:fatal error: output error
- usr/share/man/man3/VolumeNormals.3.gz No such file or directory
- usr/share/man/man3/VolumeSize.3.gz No such file or directory
- usr/share/man/man3/VoxelField.3.gz <standard input>:173:fatal error: output error
- usr/share/man/man3/VoxelSize.3.gz <standard input>:126:fatal error: output error
- usr/share/man/man3/Window.3.gz <standard input>:144:fatal error: output error
- usr/share/man/man3/WindowPHIGS.3.gz <standard input>:154:fatal error: output error
-
E non-empty-dependency_libs-in-la-file
- usr/lib/libvolpack.la
-
W comma-separated-files-in-dep5-copyright
- paragraph at line 79