1289062522
Merge branch 'core-updates'.
2015-03-04 14:07:23 +01:00
191c710139
gnu: Add crossmap.
...
* gnu/packages/bioinformatics.scm (crossmap): New variable.
* gnu/packages/patches/crossmap-allow-system-pysam.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
2015-03-02 17:23:56 +01:00
810cff8557
gnu: Add CLIPper.
...
* gnu/packages/bioinformatics.scm (clipper): New variable.
2015-03-02 14:11:54 +01:00
d57e6d0f8e
gnu: Add MACS.
...
* gnu/packages/bioinformatics.scm (macs): New variable.
2015-03-02 11:33:13 +01:00
a2fb1492af
gnu: Add pybedtools.
...
* gnu/packages/bioinformatics.scm (python2-pybedtools): New variable.
2015-03-02 11:32:10 +01:00
f586c87705
gnu: Add 'file-name' fields for github source tarballs without a name.
...
* gnu/packages/aarddict.scm (aarddict), gnu/packages/algebra.scm (arb),
gnu/packages/audio.scm (jack-2, lvtk),
gnu/packages/bioinformatics.scm (bedops, bedtools, bowtie),
gnu/packages/game-development.scm (tiled),
gnu/packages/games.scm (minetest-data, minetest, retroarch),
gnu/packages/jrnl.scm (jrnl), gnu/packages/kde.scm (qjson),
gnu/packages/libevent.scm (libuv), gnu/packages/linux.scm (pflask),
gnu/packages/mail.scm (offlineimap, libetpan),
gnu/packages/maths.scm (arpack-ng), gnu/packages/ninja.scm (ninja),
gnu/packages/nutrition.scm (gourmet),
gnu/packages/python.scm (python-cairocffi), gnu/packages/rdf.scm (lrdf),
gnu/packages/ruby.scm (ruby-i18n), gnu/packages/sxiv.scm (sxiv): Add
'file-name' field to origin.
2015-02-28 09:49:01 -05:00
da6dd842d0
gnu: Remove now unneeded 'unpack' phases for unzip.
...
This is a followup to commit cd0385b
2015-02-27 15:08:37 +01:00
85652f599a
gnu: Add HTSeq.
...
* gnu/packages/bioinformatics.scm (htseq): New variable.
2015-02-20 19:31:53 +01:00
8622a07280
gnu: Add RSeQC.
...
* gnu/packages/bioinformatics.scm (rseqc): New variable.
2015-02-19 13:41:38 +01:00
8dd4ff1133
gnu: Add bedops.
...
* gnu/packages/bioinformatics.scm (bedops): New variable.
2015-02-13 15:51:10 +01:00
e58d01faf5
gnu: hisat: fix build on non-x86_64.
...
* gnu/packages/bioinformatics.scm (hisat): Add "POPCNT_CAPABILITY=0" to
make-flags on architectures other than x86_64.
2015-02-12 14:09:00 +01:00
ce7155d5dd
gnu: Add STAR.
...
* gnu/packages/bioinformatics.scm (star): New variable.
2015-02-10 14:37:14 +01:00
346a829a85
gnu: Add HISAT.
...
* gnu/packages/bioinformatics.scm (hisat): New variable.
2015-02-10 14:37:13 +01:00
d7678942f9
gnu: Add flexbar.
...
* gnu/packages/bioinformatics.scm (flexbar): New variable.
2015-02-09 10:26:28 +01:00
d3517eda25
gnu: Add seqan.
...
* gnu/packages/bioinformatics.scm (seqan): New variable.
2015-02-09 10:26:20 +01:00
241e122193
gnu: bowtie: fix build errors
...
* gnu/packages/bioinformatics.scm (bowtie): Add 'supported-systems' field and
add Makefile patch.
* gnu/packages/patches/bowtie-fix-makefile.patch: New file.
* gnu-system.am (dist_patch_DATA): Add it.
2015-01-30 10:45:27 +01:00
2c7ee16720
gnu: Add bowtie
...
* gnu/packages/bioinformatics.scm (bowtie): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2014-12-19 18:50:28 +01:00
81de56479a
gnu: Add bedtools
...
* gnu/packages/bioinformatics.scm (bedtools): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2014-12-16 18:17:15 +01:00
f3cd952b45
gnu: samtools: disable tests for non-64-bit systems
...
* gnu/packages/bioinformatics.scm (samtools): disable tests for all non-64-bit
systems because of an upstream bug in the test data.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2014-12-16 18:17:15 +01:00
4e10a22168
gnu: Add samtools
...
* gnu/packages/bioinformatics.scm: New file
* gnu-system.am (GNU_SYSTEM_MODULES): Add it
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2014-12-13 00:01:06 +01:00
Ludovic Courtès