Lintian Reports

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.

abacas (1.3.1-3)

abacas

abyss (2.0.2-2)

abyss

adapterremoval (2.2.0-1)

adapterremoval

aevol (4.4-1)

alter-sequence-alignment (1.3.3+dfsg-1)

altree (1.3.1-4)

altree (1.3.1-4+b2; main)

amap-align (2.2-6)

ampliconnoise (1.29-6)

ampliconnoise

arb (6.0.6-1)

arb

arb-common

autodock-vina (1.1.2-3)

autodocksuite (4.2.6-3)

autodocktools (1.5.7-2)

baitfisher (1.0+dfsg-1)

baitfisher

ball (1.4.3~beta1-3)

ballview

libball1.4

libballview1.4

bambamc (0.0.50-1)

libbambamc0

bcftools (1.3.1-1)

bcftools (1.3.1-1+b1; main)

beast-mcmc (1.8.4+dfsg.1-1)

beast-mcmc

libnucleotidelikelihoodcore0

bedops (2.4.20+dfsg-2)

bedops

bedtools (2.26.0+dfsg-3)

bedtools

bedtools-test

bio-rainbow (2.0.4-1)

bio-rainbow (2.0.4-1+b1; main)

biococoa (2.2.2-2)

biojava-live (1:1.7.1-5)

biomaj-watcher (1.2.2-4)

biomaj-watcher

bioperl (1.7.1-2)

bioperl

libbio-perl-perl

bioperl-run (1.7.1-3)

bioperl-run

libbio-perl-run-perl

bitops (1.0-6-1)

r-cran-bitops

blasr (5.3+0-1)

blasr

blimps (3.9-1)

blimps-utils

libblimps3

bowtie (1.1.2-6)

bowtie

bowtie2 (2.2.5-2)

brig (0.95+dfsg-1)

brig

cassiopee (1.0.5-1)

cassiopee

cd-hit (4.6.6-2)

cd-hit

ciftilib (1.5.1-1)

libcifti-doc

circos (0.69.4+dfsg-1)

circos

clearcut (1.0.9-1)

clustalx (2.1+lgpl-5)

clustalx

cluster3 (1.52a-1)

coils (2002-4)

crac (2.5.0+dfsg-1)

crac

dawg (1.2-1)

dichromat (2.0.0-3)

dicompyler (0.4.2-3)

dicompyler

dicomscope (3.6.0-15)

libdicomscope-jni (3.6.0-15+b2; main)

discosnp (1.2.6-1)

discosnp (1.2.6-1+b2; main)

dnaclust (3-4)

dnaclust (3-4+b2; main)

dwgsim (0.1.11-3)

ecopcr (0.5.0+dfsg-1)

ecopcr

edflib (1.11-2)

edtsurf (0.2009-4)

eigensoft (6.1.4+dfsg-1)

eigensoft (6.1.4+dfsg-1+b1; main)

elastix (4.8-10)

elastix-doc

embassy-domalign (0.1.660-1)

embassy-domalign

embassy-domsearch (1:0.1.660-1)

embassy-domsearch

emboss (6.6.0+dfsg-6)

emboss

emboss-doc

emboss-lib

emboss-test

jemboss

emboss-explorer (2.2.0-8)

emboss-explorer

libemboss-acd-perl

epigrass (2.4.7-1)

epigrass

falcon (1.8.6-1)

falcon

fastdnaml (1.2.2-11)

fastx-toolkit (0.0.14-3)

fastx-toolkit

ffindex (0.9.9.7-3)

ffindex

libffindex0

figtree (1.4.2+dfsg-2)

filo (1.1.0-3)

filo (1.1.0-3+b1; main)

fis-gtm (6.3-000A-1)

fis-gtm-6.3-000a

flexbar (2.50-2)

freebayes (1.0.2-1)

freebayes

freecontact (1.0.21-5)

freemedforms-project (0.9.4-1)

freemedforms-freedata

freemedforms-libs (0.9.4-1+b1; main)

freemedforms-project

fw4spl (11.0.4-1)

fw4spl

g2 (0.72-6)

libg20

garli (2.1-1)

garli-examples

gbrowse (2.56+dfsg-2)

gbrowse

gff2aplot (2.0-8)

gff2ps (0.98d-5)

glam2 (1064-3)

grinder (0.5.4-1)

grinder

hmmer (3.1b2+dfsg-5)

hmmer

htseq (0.5.4p3-2)

python-htseq-doc

htseq (0.6.1p1-4)

python-htseq-doc

htslib (1.3.2-2)

libhts-dev

htslib (1.4-3)

libhts-dev

hunspell-en-med (0.0.20080513-2)

hyphy (2.2.7+dfsg-1)

hyphy-mpi (2.2.7+dfsg-1+b2; main)

hyphy-pt (2.2.7+dfsg-1+b2; main)

hyphygui (2.2.7+dfsg-1+b2; main)

igraph (0.7.1-2.1)

indelible (1.03-2)

insighttoolkit4 (4.10.1-dfsg1-1.1)

libinsighttoolkit4-dev (4.10.1-dfsg1-1.1+b1; main)

insighttoolkit4 (4.11.0-dfsg1-1)

libinsighttoolkit4-dev

ipig (0.0.r5-2)

iqtree (1.5.3+dfsg-2)

iqtree

ismrmrd (1.3.3-1)

libismrmrd-doc

jebl2 (0.1+20140614-1)

jellyfish (2.2.6-1)

jellyfish (2.2.6-1+b1; main)

jmodeltest (2.1.10+dfsg-5)

jmodeltest

kmc (2.3+dfsg-5)

kraken (0.10.5~beta-2)

last-align (830-1)

last-align

lefse (1.0.8-1)

lefse

libace-perl (1.92-4)

libace-perl (1.92-4+b1; main)

libbio-graphics-perl (2.40-1)

libbio-graphics-perl

libbio-mage-perl (20030502.3-3)

libbio-mage-perl

libbio-mage-utils-perl (20030502.0-2)

libbio-mage-utils-perl

libbpp-phyl (2.2.0-1)

libbpp-phyl-dev (2.2.0-1+b1; main)

libbpp-phyl-omics (2.2.0-2)

libbpp-phyl-omics-dev

libbpp-popgen (2.2.0-1)

libbpp-popgen-dev

libbpp-qt (2.2.0-1)

libbpp-qt-dev (2.2.0-1+b1; main)

libbpp-raa (2.2.0-2)

libbpp-raa-dev

libbpp-seq (2.2.0-1)

libbpp-seq-dev (2.2.0-1+b1; main)

libbpp-seq-omics (2.2.0-1)

libbpp-seq-omics-dev

libchado-perl (1.31-3)

chado-utils

libcolt-free-java (1.2.0+dfsg-4)

libctapimkt (1.0.5~rc1-4)

libdivsufsort (2.0.1-2)

libdivsufsort3

libgff (1.0-1)

libhac-java (0.20110510-1)

libhmsbeagle (2.1.2+20160831-5)

libhmsbeagle1v5

libics (1.5.2-6)

libics0

libjung-free-java (2.0.1+dfsg-1)

liblemon (1.3.1+dfsg-1)

liblemon-utils (1.3.1+dfsg-1+b2; main)

libncl (2.1.18+dfsg-2)

liboptions-java (0.0.20120113-2)

libquazip (0.7.2-1)

libquazip-doc

librandom123 (1.09+dfsg-1)

librcsb-core-wrapper (1.005-4)

librcsb-core-wrapper-doc

librdp-taxonomy-tree-java (1.2.0-1)

librg-exception-perl (1.0.3-2)

libsis-base-java (14.12.0-4)

libsis-base-jni

libsort-key-top-perl (0.08-1)

libtabixpp (1.0.0-2)

libtecla (1.6.3-1)

libtecla1

libtfbs-perl (0.7.0+dfsg-4)

libtfbs-perl

libvistaio (1.2.19-1)

libzerg (1.0.7-8)

libzerg-perl (1.0.4-5)

libzstd (1.1.2-1)

zstd

logol (1.7.5-1)

loki (2.4.7.4-6)

ltrsift (1.0.2-7)

mapsembler2 (2.2.3+dfsg-3)

mapsembler2 (2.2.3+dfsg-3+b1; main)

maq (0.7.1-7)

maq

maqview (0.2.5-7)

maqview (0.2.5-7+b1; main)

mauve-aligner (2.4.0+4734-3)

mauve-aligner

maxflow (3.0.4-1)

libmaxflow0

mcl (1:14-137-1)

mcl (1:14-137-1+b1; main)

mcl-doc

melting (4.3.1+dfsg-2)

mencal (3.0-2)

mencal

metastudent-data-2 (1.0.0-2)

mgltools-bhtree (1.5.7-1)

mgltools-bhtree

mgltools-cadd (1.5.7-1)

mgltools-cadd

mgltools-cmolkit (1.5.7~rc1+cvs.20140424-1)

mgltools-cmolkit

mgltools-dejavu (1.5.7-1)

mgltools-dejavu

mgltools-geomutils (1.5.7-1)

mgltools-geomutils

mgltools-gle (1.5.7-1)

mgltools-gle

mgltools-mglutil (1.5.7-2)

mgltools-mglutil

mgltools-molkit (1.5.7~rc1+cvs.20140424-1)

mgltools-molkit

mgltools-networkeditor (1.5.7-1)

mgltools-networkeditor

mgltools-opengltk (1.5.7-1)

mgltools-opengltk

mgltools-pmv (1.5.7-1)

mgltools-pmv

mgltools-pyautodock (1.5.7-1)

mgltools-pyautodock

mgltools-pybabel (1.5.7-1)

mgltools-pybabel

mgltools-pyglf (1.5.7-1)

mgltools-pyglf

mgltools-scenario2 (1.5.7-1)

mgltools-scenario2

mgltools-sff (1.5.7-1)

mgltools-sff

mgltools-support (1.5.7-1)

mgltools-support

mgltools-symserv (1.5.7-1)

mgltools-symserv

mgltools-utpackages (1.5.7-1)

mgltools-utpackages

mgltools-viewerframework (1.5.7-1)

mgltools-vision (1.5.7-1)

mgltools-vision

mgltools-visionlibraries (1.5.7-1)

mgltools-visionlibraries

mgltools-volume (1.5.7-1)

mgltools-volume

mgltools-webservices (1.5.7-1)

mgltools-webservices

microbegps (1.0.0-2)

microbegps

microbiomeutil (20101212+dfsg1-1)

minc-tools (2.3.00+dfsg-1.1)

minc-tools (2.3.00+dfsg-1.1+b1; main)

minia (1.6906-1)

minia (1.6906-1+b2; main)

mipe (1.1-5)

mlv-smile (1.47-4)

mobyle (1.5.5+dfsg-2)

mobyle

mobyle-utils

mobyle-programs (5.1.2-1)

mobyle-programs

mobyle-tutorials (1.5.0-2)

mrbayes (3.2.6+dfsg-1)

mrs (6.0.5+dfsg-2)

mrs (6.0.5+dfsg-2+b2; main)

murasaki (1.68.6-6)

murasaki-mpi (1.68.6-6+b4; main)

mypy (0.470-complete-1)

mypy

ncbi-blast+ (2.6.0-1)

ncbi-blast+

ncbi-blast+-legacy

ncbi-entrez-direct (6.10.20170123+ds-1)

ncbi-entrez-direct

ncbi-seg (0.0.20000620-3)

ncbi-tools6 (6.1.20170106-2)

libncbi6

neobio (0.0.20030929-2)

norsnet (1.0.17-2)

norsp (1.0.6-2)

nutsqlite (1.9.9.3-2)

nutsqlite

opencfu (3.9.0-2)

opencfu

openslide (3.4.1+dfsg-2)

libopenslide-dev

opensurgsim (0.7.0-5)

libopensurgsim

orthanc-dicomweb (0.3+dfsg-2)

orthanc-dicomweb

orthanc-imagej (1.1+dfsg-1)

orthanc-postgresql (2.0-3)

orthanc-postgresql (2.0-3+b1; main)

orthanc-webviewer (2.2-2)

orthanc-webviewer

orthanc-wsi (0.4+dfsg-1)

orthanc-wsi

paml (4.9e+dfsg-1)

paml

paraclu (9-1)

paraclu (9-1+b2; main)

parafly (0.0.2013.01.21-3)

pbalign (0.3.0-1)

pbalign

pbbam (0.7.4+ds-1)

pbbamtools

pbbarcode (0.8.0-4)

pbbarcode

pbdagcon (0.3+20161121+ds-1)

pbdagcon

pbseqlib (0~20161219-1)

libblasr

libpbdata

libpbihdf

pbsim (1.0.3-3)

phipack (0.0.20160614-2)

phipack

phybin (0.3-1)

phylip (1:3.696+dfsg-5)

phylip

phyutility (2.7.3-1)

piler (0~20140707-1)

pirs (2.0.2+dfsg-5.1)

pirs (2.0.2+dfsg-5.1+b1; main)

pixelmed (20150917-1)

libpixelmed-java

libpixelmed-java-doc

pixelmed-apps

pixelmed-webstart-apps

pixelmed-www

placnet (1.03-2)

plink

poa (2.0+20060928-4)

pp-popularity-contest (1.0.6-2)

proalign (0.603-2)

probcons (1.12-11)

probcons

proda (1.0-10)

profphd (1.0.42-1)

progressivemauve (1.2.0+4713-2)

psortb (3.0.4+dfsg-2)

psortb

pvclust (2.0-0-1)

pvrg-jpeg (1.2.1+dfsg1-4)

python-biom-format (2.1.5+dfsg-7)

biom-format-tools

python-biomaj3 (3.0.20-1)

biomaj3-commons

python-biomaj3

python3-biomaj3

python-burrito (0.9.1-1)

python-bz2file (0.98-1)

python-casmoothing (0.2-1)

python-dictobj (0.4-1)

python-freecontact (1.1-2)

python-gffutils (0.8.7.1-1)

python3-gffutils

python-mne (0.13.1+dfsg-3)

python-pybedtools (0.7.8-1)

python3-pybedtools

python-pyvcf (0.6.8-1)

pyvcf

python-schema-salad (2.2.20170111180227-1)

python-schema-salad

python-screed (0.9-2)

qcumber (1.0.14+dfsg-1)

qcumber

qiime (1.9.1+dfsg-1)

qiime

qsopt-ex (2.5.10.3-1)

r-bioc-aroma.light (3.6.0-1)

r-bioc-biocparallel (1.10.1-1)

r-bioc-rsamtools (1.26.1-2)

r-bioc-rsamtools (1.26.1-2+b1; main)

r-cran-batchjobs (1.6-1)

r-cran-blockmodeling (0.1.8-1)

r-cran-brew (1.0-6-1)

r-cran-catools (1.17.1-1)

r-cran-cmprsk (2.2-7-2)

r-cran-combinat (0.0-8-4)

r-cran-deal (1:1.2-37-2)

r-cran-diagnosismed (0.2.3-4)

r-cran-dplyr (0.5.0-1)

r-cran-dplyr

r-cran-epibasix (1.3-2)

r-cran-epitools (1:0.5-7-1)

r-cran-etm (0.6-2-3)

r-cran-fail (1.3-1)

r-cran-fastmatch (1.0-4-1)

r-cran-futile.options (1.0.0-2)

r-cran-g.data (2.4-1)

r-cran-genabel (1.8-0-1)

r-cran-genabel.data (1.0.0-1)

r-cran-genetics (1.3.8.1-1)

r-cran-htmltools (0.3.5-2)

r-cran-hwriter (1.3.2-1)

r-cran-labeling (0.3-1)

r-cran-labeling

r-cran-medadherence (1.03-2)

r-cran-nnls (1.4-1)

r-cran-praise (1.0.0-1)

r-cran-psy (1.1-2)

r-cran-r.methodss3 (1.7.1-1)

r-cran-r.oo (1.21.0-1)

r-cran-r.oo

r-cran-randomforest (4.6-12-1)

r-cran-rocr (1.0-7-2)

r-cran-sendmailr (1.2-1-1)

r-cran-stringi (1.1.2-1)

r-cran-testthat (1.0.2-2)

r-cran-vioplot (0.2-2)

r-other-mott-happy (2.4-1)

r-other-mott-happy.hbrem

r-other-mott-happy.hbrem-dbg

raccoon (1.0b-2)

radiant (2.7+dfsg-1)

radiant

rapmap (0.4.0+dfsg-2)

rapmap

raster3d (3.0-3-2)

raster3d-doc

raxml (8.2.9+dfsg-1)

raxml (8.2.9+dfsg-1+b1; main)

ray (2.3.1-4)

ray (2.3.1-4+b1; main)

rdp-classifier (2.10.2-1)

readseq (1-11)

readseq (1-11+b1; main)

repeatmasker-recon (1.08-3)

repeatmasker-recon (1.08-3+b1; main)

rnahybrid (2.1.2-1)

roary (3.8.0+dfsg-1)

roary

rsem (1.2.31+dfsg-1)

rsem

rtax (0.984-5)

runcircos-gui (0.0+20160403-1)

runcircos-gui

saint (2.5.0+dfsg-2)

samtools (1.3.1-3)

samtools

samtools (1.4-1)

samtools (1.4-1+b1; main)

samtools-legacy (0.1.19-2)

scythe (0.994-4)

seq-gen (1.3.3-1)

seq-gen

seqan2 (2.3.1+dfsg-3)

seqan-apps

sibsim4 (0.20-2)

sickle (1.33-1)

sift (4.0.3b-4)

sift

sigma-align (1.1.3-4)

sigma-align (1.1.3-4+b1; main)

snap (2013-11-29-6)

snap

soapdenovo2 (240+dfsg1-2)

soapdenovo2

socket++ (1.12.13-8)

libsocket++1

sphinxcontrib-autoprogram (0.1.2-1)

spread-phy (1.0.7+dfsg-1)

squizz (0.99c+dfsg-1)

squizz

sra-sdk (2.8.1-2+dfsg-2)

sra-toolkit

srf (0.1+dfsg-4)

ssake (3.8.4-1)

stacks (1.44-2)

stacks (1.44-2+b1; main)

stacks-web

staden (2.0.0+b11-2)

staden (2.0.0+b11-2+b1; main)

staden-io-lib (1.14.8-2)

libstaden-read-dev

staden-io-lib-examples

staden-io-lib-utils

suitename (0.3.070628-1)

theseus (3.3.0-5)

theseus (3.3.0-5+b1; main)

tnseq-transit (2.0.2-1)

tnseq-transit

tophat (2.1.1+dfsg-2)

tophat (2.1.1+dfsg-2+b2; main)

toppred (1.10-4)

toppred

transrate-tools (1.0.0-1)

tree-puzzle (5.2-8)

tvc (5.0.3+dfsg-2)

tvc

uc-echo (1.12-9)

uc-echo (1.12-9+b1; main)

ugene (1.25.0+dfsg-1)

ugene

velvet (1.2.10+dfsg1-3)

velvet (1.2.10+dfsg1-4)

velvet-long

visionegg (1.2.1-2)

volpack (1.0b3-5)

libvolpack1

libvolpack1-dev

vsearch (2.3.4-1)

vsearch

wise (2.4.1-19)

wise-data

xmedcon (0.14.1-1)

libmdc2-dev (0.14.1-1+b2; main)

medcon (0.14.1-1+b2; main)

xmedcon (0.14.1-1+b2; main)

zalign (0.9.1-2)