Commit 141ab4cf authored by Charles Plessy's avatar Charles Plessy

Refreshed the list of packages for which BioPerl-Run has a wrapper.

parent a3674cf0
......@@ -2,14 +2,20 @@ Source: bioperl-run
Section: science
Priority: optional
Build-Depends: debhelper (>= 8), quilt, libmodule-build-perl
Build-Depends-Indep: perl, bioperl (>= 1.6.0), libalgorithm-diff-perl, libipc-run-perl, libio-string-perl, libxml-twig-perl,
libarray-compare-perl, libtree-dagnode-perl
# Here is a list of all the packages and prospective packages for which wrappers are provided.
XS-Build-Recommends: coils, emboss, eponine, footprinter, wise, genscan, hmmer,
pise, ensembl, fingerprintscan, prscan, repeatmasker, seg, signalp, tmhmm,
tribe, paml, molphy, phylip, clustalw, sim4, t-coffee, blast2, fasta, lagan,
vista-align, amap-align, blat,
# This Perl library is needed for the network tests.
Build-Depends-Indep: perl, bioperl (>= 1.6.9),
# Recommended in Build.PL:
libalgorithm-diff-perl,
libipc-run-perl,
libio-string-perl,
libxml-twig-perl,
# Not yet available: libfile-sort-perl
# Needed for the tests, but not documented Upstream
libarray-compare-perl, libtree-dagnode-perl,
# Needed for the regression tests: all Recommends of bioperl-run except embassy, that needs interactive setup.
amap-align, bedtools, blast2, bowtie, bwa, clustalw, emboss, exonerate,
gmap, hmmer, infernal, kalign, maq, mafft, muscle, phyml, primer3, probcons,
samtools, sim4, t-coffee, tigr-glimmer, wise,
# Needed for the network tests:
libwww-perl
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
DM-Upload-Allowed: yes
......@@ -22,9 +28,20 @@ Homepage: http://www.bioperl.org/wiki/Run_package
Package: bioperl-run
Architecture: all
Depends: ${misc:Depends}, ${perl:Depends}, bioperl (>= 1.6.0), libbio-perl-run-perl (= ${source:Version})
Recommends: amap-align, blast2, clustalw, emboss, ensembl, hmmer, sim4, t-coffee, wise
Suggests: coils, eponine, footprinter, genscan, pise, fingerprintscan, prscan, repeatmasker,
seg, signalp, tmhmm, tribe, paml, molphy, phylip, fasta, lagan, vista-align, blat
Recommends: amap-align, bedtools, blast2, bowtie, bwa, clustalw, emboss, exonerate,
gmap, hmmer, infernal, kalign, maq, mafft, muscle, phyml, primer3, probcons,
samtools, sim4, t-coffee, tigr-glimmer, wise
Suggests:
# Non-Free.
paml, molphy, phylip,
# Not available.
# blat, cap3, coils, condense, dba, drawgram, drawtree, eponine, fasta, footprinter, genemark-hmm,
# genewise, genscan, gerp, glimmer2, hyphy, lagan, lvb, match, mcs, mdust, meme, minimo,
# neighbor, newbler, njtree, pal2nal, phastcons, phrap, primate, prints, probalign, profile,
# promoterwise, protdist, protpars, pseudowise, quikctree, repeatmasker, sablastplus, seg,
# semphy, seqboot, signalp, simprot, slr, soapeu, tigr-assembler, tmhmm, tribe, trnascan, vista-align,
# Available, but needs interactive setup.
ensembl
Description: BioPerl wrappers: scripts
Contains scripts from the the BioPerl-Run package. This package will also install all
wrappable applications packaged in Debian. The ones that are not available or not Free are
......
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