~ruther/guix-local

ref: a79112079e7f233f24a5cb09e03bbfff6e8b9a9b guix-local/gnu/packages/bioinformatics.scm -rw-r--r-- 27.1 KiB
12890625 — Ludovic Courtès 11 years ago 
Merge branch 'core-updates'.
191c7101 — Ricardo Wurmus 11 years ago 
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.
810cff85 — Ricardo Wurmus 11 years ago 
gnu: Add CLIPper.

* gnu/packages/bioinformatics.scm (clipper): New variable.
d57e6d0f — Ricardo Wurmus 11 years ago 
gnu: Add MACS.

* gnu/packages/bioinformatics.scm (macs): New variable.
a2fb1492 — Ricardo Wurmus 11 years ago 
gnu: Add pybedtools.

* gnu/packages/bioinformatics.scm (python2-pybedtools): New variable.
f586c877 — Mark H Weaver 11 years ago 
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.
da6dd842 — Ludovic Courtès 11 years ago 
gnu: Remove now unneeded 'unpack' phases for unzip.

This is a followup to commit cd0385b.

* gnu/packages/bioinformatics.scm (hisat)[arguments]: Remove 'unpack'
  phase.
* gnu/packages/image.scm (freeimage): Likewise.
* gnu/packages/python.scm (python2-cssutils): Likewise.
93be4e8e — Ludovic Courtès 11 years ago 
Merge branch 'master' into core-updates
85652f59 — Ricardo Wurmus 11 years ago 
gnu: Add HTSeq.

* gnu/packages/bioinformatics.scm (htseq): New variable.
8622a072 — Ricardo Wurmus 11 years ago 
gnu: Add RSeQC.

* gnu/packages/bioinformatics.scm (rseqc): New variable.
8dd4ff11 — Ricardo Wurmus 11 years ago 
gnu: Add bedops.

* gnu/packages/bioinformatics.scm (bedops): New variable.
e58d01fa — Ricardo Wurmus 11 years ago 
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.
ce7155d5 — Ricardo Wurmus 11 years ago 
gnu: Add STAR.

* gnu/packages/bioinformatics.scm (star): New variable.
346a829a — Ricardo Wurmus 11 years ago 
gnu: Add HISAT.

* gnu/packages/bioinformatics.scm (hisat): New variable.
d7678942 — Ricardo Wurmus 11 years ago 
gnu: Add flexbar.

* gnu/packages/bioinformatics.scm (flexbar): New variable.
d3517eda — Ricardo Wurmus 11 years ago 
gnu: Add seqan.

* gnu/packages/bioinformatics.scm (seqan): New variable.
241e1221 — Ricardo Wurmus 11 years ago 
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.
763a401e — Ludovic Courtès 11 years ago 
Merge branch 'master' into core-updates
2c7ee167 — Ricardo Wurmus 11 years ago 
gnu: Add bowtie

* gnu/packages/bioinformatics.scm (bowtie): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
81de5647 — Ricardo Wurmus 11 years ago 
gnu: Add bedtools

* gnu/packages/bioinformatics.scm (bedtools): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
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