[Blends-commit] r1768 - projects/med/trunk/debian-med/tasks

Tue Aug 18 05:57:10 UTC 2009

Author: tille
Date: Tue Aug 18 05:57:08 2009
New Revision: 1768
URL: http://svn.debian.org/viewsvn/blends?rev=1768&view=rev

Log:
Remove biomode from bio-dev task; s/Depends/Recommends/ because it is changed by blends-dev anyway and perhaps a real Depends should be enabled in the far future anyway.


Modified:
   projects/med/trunk/debian-med/tasks/bio-dev

Modified: projects/med/trunk/debian-med/tasks/bio-dev
URL: http://svn.debian.org/viewsvn/blends/projects/med/trunk/debian-med/tasks/bio-dev?rev=1768&view=diff&r1=1768&r2=1767&p1=projects/med/trunk/debian-med/tasks/bio-dev&p2=projects/med/trunk/debian-med/tasks/bio-dev
==============================================================================

--- projects/med/trunk/debian-med/tasks/bio-dev	(original)
+++ projects/med/trunk/debian-med/tasks/bio-dev	Tue Aug 18 05:57:08 2009
@@ -3,52 +3,55 @@
  This metapackage will install Debian packages which might be helpful
  for development of applications for micro-biological research.
 
-Depends: bioperl, bioperl-run, libncbi6-dev, mcl
+Reommends: bioperl, bioperl-run, libncbi6-dev, mcl
 
-Suggests: biomode
+Comment: biomode is removed from Debian because it is orphaned upstream, outdated
+         and doese not work with recent Emacs any more
 
-Depends: libvibrant6-dev
-Why: libmotif-dev conflicts lesstif-dev, so if someone wants to install libmotif-dev it must be possible to deinstall libvibrant6-dev without beeing forced to deinstall med-bio-dev as well
+Reommends: libvibrant6-dev
+Why: libmotif-dev conflicts lesstif-dev, so if someone wants to install
+     libmotif-dev it must be possible to deinstall libvibrant6-dev without
+     beeing forced to deinstall med-bio-dev as well
 
-Depends: python-biopython
+Reommends: python-biopython
 
-Depends: libbio-ruby
+Reommends: libbio-ruby
 
-Depends: libbiojava-java
+Reommends: libbiojava-java
 
-Depends: libqsearch-dev
+Reommends: libqsearch-dev
 
-Depends: libgenome-1.3-0-dev
+Reommends: libgenome-1.3-0-dev
 
-Depends: libbio-mage-perl
+Reommends: libbio-mage-perl
 Why: Useful for the submission of microarray data to public repositories.
 
-Depends: libajax5-dev, libnucleus5-dev
+Reommends: libajax5-dev, libnucleus5-dev
 
-Depends: libtfbs-perl
+Reommends: libtfbs-perl
 
-Depends: libgo-perl 
+Reommends: libgo-perl 
 
-Depends: r-cran-genetics, r-cran-haplo.stats
+Reommends: r-cran-genetics, r-cran-haplo.stats
 
-Depends: octave-bioinfo
+Reommends: octave-bioinfo
 
-Depends: libbio-graphics-perl
+Reommends: libbio-graphics-perl
 
-Depends: libbio-primerdesigner-perl
+Reommends: libbio-primerdesigner-perl
 
-Depends: libace-perl
+Reommends: libace-perl
 
-Depends: libbiococoa-dev
+Reommends: libbiococoa-dev
 
-Depends: libstaden-read-dev
+Reommends: libstaden-read-dev
 
 Suggests: r-cran-rocr
 Why: Even if this package is not directly connected to biology it is maintained by
      Debian Med team and should be in our focus and it is not wrong to suggest this
      package for development of biological applications based on R
 
-Depends: bioconductor
+Reommends: bioconductor
 Homepage: http://www.bioconductor.org/
 Responsible: Debian CRAN/BioConductor/Omegahat packaging team <pkg-bioc-devel at lists.alioth.debian.org>
 License: GPL/LGPL
@@ -77,7 +80,7 @@
  A nice overview about all modules of BioDonductor is given at
  http://www.bioconductor.org/packages/release/bioc/
 
-Depends: bioclipse
+Reommends: bioclipse
 Homepage: http://www.bioclipse.net/
 License: Eclipse Public License (EPL) + exception
 Pkg-Description: platform for chemo- and bioinformatics based on Eclipse
@@ -98,7 +101,7 @@
  followed on the Bioclipse Wiki where we document the progress and
  ideas of the development on a daily basis.
 
-Depends: libgff-perl
+Reommends: libgff-perl
 Homepage: http://www.sanger.ac.uk/Software/formats/GFF/
 Responsible: David Paleino <d.paleino at gmail.com>
 License: GPL-1+
@@ -109,7 +112,7 @@
  .
  This package provides a Perl module to use GFF objects.
 
-Depends: libmems-1.5-1
+Reommends: libmems-1.5-1
 Homepage: http://asap.ahabs.wisc.edu/software/software-development-libraries/libmems.html
 Responsible: Andreas Tille <tille at debian.org>
 License: GPL
@@ -124,7 +127,7 @@
  input sequence, and this data can be stored externally (i.e. on disk) to
  further reduce memory requirements.
 
-Depends: libbio-das-perl
+Reommends: libbio-das-perl
 Homepage: http://www.biodas.org/
 Responsible: Steffen Moeller <moeller at debian.org>
 License: Perl Artistic License
@@ -135,7 +138,7 @@
  version 1.5. Both unencrypted (http:) and SSL-encrypted (https:)
  DAS servers are supported.
 
-Depends: limma
+Reommends: limma
 Homepage: http://bioinf.wehi.edu.au/limma
 Responsible: Steffen Moeller <moeller at debian.org>
 WNPP: 293320
@@ -145,7 +148,7 @@
  investigate gene expression data from microarrays with the
  statistical package R.
 
-Depends: libbio-mage-utils-perl
+Reommends: libbio-mage-utils-perl
 Homepage: http://mged.sourceforge.net/
 License: MIT/X
 WNPP: 476202
@@ -161,7 +164,7 @@
  Bio-MAGE-Utils contains extra modules for handling MAGE XML and MGED ontology,
  as well as SQL utilities.
 
-Depends: seqan
+Reommends: seqan
 Homepage: http://www.seqan.de/
 License: LGPL
 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/seqan/trunk/
@@ -179,7 +182,7 @@
  See http://lists.debian.org/debian-med/2009/06/msg00000.html for recent
  discussion on Debian Med mailing list.
 
-Depends: libsbml1
+Reommends: libsbml1
 Homepage: http://www.sbml.org/
 License: LGPL
 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/libsbml/trunk/
@@ -202,4 +205,3 @@
  .
  The LibSBML code is very portable and is supported on Linux, Windows
  (native), and Mac OS X.
-

