Ben Woodcroft
|
ba773f65f0
|
gnu: cd-hit: Update to 4.6.8.
* gnu/packages/bioinformatics.scm (cd-hit): Update to 4.6.8.
|
2017-07-01 10:49:37 +10:00 |
|
Ben Woodcroft
|
fd99d95b3f
|
gnu: bwa: Update to 0.7.15.
* gnu/packages/bioinformatics.scm (bwa): Update to 0.7.15.
|
2017-07-01 09:48:20 +10:00 |
|
Ricardo Wurmus
|
7ceb0a83e3
|
gnu: Add f-seq.
* gnu/packages/bioinformatics.scm (f-seq): New variable.
|
2017-06-25 22:26:07 +02:00 |
|
Ben Woodcroft
|
dfc83eadaf
|
gnu: orfm: Update to 0.7.1.
* gnu/packages/bioinformatics.scm (orfm): Update to 0.7.1.
|
2017-06-24 14:46:46 +10:00 |
|
Ben Woodcroft
|
ab8d728144
|
gnu: orfm: Update to 0.7.0.
* gnu/packages/bioinformatics.scm (orfm): Update to 0.7.0.
|
2017-06-23 22:22:50 +10:00 |
|
Ricardo Wurmus
|
94820951d6
|
gnu: Add kentutils.
* gnu/packages/bioinformatics.scm (kentutils): New variable.
|
2017-06-23 08:09:33 +02:00 |
|
Ricardo Wurmus
|
c1dfe8c30b
|
gnu: python2-bx-python: Update to 0.7.3.
* gnu/packages/bioinformatics.scm (python2-bx-python): Update to 0.7.3.
|
2017-06-22 17:25:40 +02:00 |
|
Arun Isaac
|
148585c240
|
gnu: Move contents of zip module into compression module.
* gnu/packages/zip.scm (zip, unzip, zziplib, perl-zip): Move to...
* gnu/packages/compression.scm: ...here.
* gnu/packages/zip.scm: Delete file.
* gnu/local.mk (GNU_SYSTEM_MODULES): Unregister deleted file.
* po/packages/POTFILES.in: Unregister deleted file.
* gnu/packages/{audio, avr, bioinformatics, busybox, cdrom, ci, compression,
docbook, documentation, fonts, fpga, game-development, games, gl, gnome,
gnuzilla, graphics, guile, haskell, image, java, kodi, ldc, libreoffice,
markup, maths, mc, monitoring, music, php, pretty-print, python, scheme,
smalltalk, statistics, synergy, tex, textutils, video, web-browsers, xml,
zip}.scm, guix/build-system/{ant, font}.scm, guix/{download, packages}.scm:
Adapt module import.
|
2017-06-20 18:10:35 +05:30 |
|
Ben Woodcroft
|
0002be1d0b
|
gnu: diamond: Update to 0.9.8.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.8.
|
2017-06-17 13:05:08 +10:00 |
|
Tobias Geerinckx-Rice
|
a147fadd3b
|
gnu: tadbit: Fix typo in description.
* gnu/packages/bioinformatics.scm (tadbit)[description]: Fix typo.
|
2017-06-16 00:29:21 +02:00 |
|
Efraim Flashner
|
07bf6929b9
|
gnu: gemma: Fix indentation.
* gnu/packages/bioinformatics.scm (gemma)[arguments]: Fix indentation.
|
2017-06-15 10:32:03 +03:00 |
|
Efraim Flashner
|
2c9232ae69
|
gnu: gemma: Fix building on 32-bit architectures.
* gnu/packages/bioinformatics.scm (gemma)[arguments]: On 32-bit
architectures add 'FORCE_32BIT' flag.
|
2017-06-15 10:31:44 +03:00 |
|
Ricardo Wurmus
|
8befd0940b
|
gnu: Add tadbit.
* gnu/packages/bioinformatics.scm (tadbit): New variable.
|
2017-06-09 03:32:23 +02:00 |
|
Ricardo Wurmus
|
aa163424b2
|
gnu: Add imp.
* gnu/packages/bioinformatics.scm (imp): New variable.
|
2017-06-09 03:31:51 +02:00 |
|
Ricardo Wurmus
|
282b01515b
|
gnu: Add phylip.
* gnu/packages/bioinformatics.scm (phylip): New variable.
|
2017-06-09 03:31:50 +02:00 |
|
Ricardo Wurmus
|
3420c905cd
|
gnu: Add gess.
* gnu/packages/bioinformatics.scm (gess): New variable.
|
2017-06-09 03:31:50 +02:00 |
|
Ricardo Wurmus
|
44f6c88909
|
gnu: Add trim-galore.
* gnu/packages/bioinformatics.scm (trim-galore): New variable.
|
2017-06-09 03:31:50 +02:00 |
|
Ricardo Wurmus
|
b8fffd3a53
|
gnu: Add ritornello.
* gnu/packages/bioinformatics.scm (ritornello): New variable.
|
2017-06-09 03:31:50 +02:00 |
|
Ben Woodcroft
|
f69ff11af7
|
gnu: diamond: Update to 0.9.6.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.6.
|
2017-06-08 09:39:23 +10:00 |
|
Roel Janssen
|
b9a601d9db
|
gnu: Add kaiju.
* gnu/packages/bioinformatics.scm (kaiju): New variable.
|
2017-06-02 12:38:23 +02:00 |
|
Ben Woodcroft
|
0d2b2fd4f4
|
gnu: diamond: Update to 0.9.3.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.3.
|
2017-05-28 21:06:06 -04:00 |
|
Ben Woodcroft
|
ca40d4e7c5
|
gnu: diamond: Update to 0.9.2.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.2.
|
2017-05-27 22:03:00 -04:00 |
|
Ben Woodcroft
|
b608765a2c
|
gnu: diamond: Update to 0.9.1.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.1.
|
2017-05-22 21:17:41 +01:00 |
|
Ricardo Wurmus
|
296b3c631c
|
gnu: Add r-edaseq.
* gnu/packages/bioinformatics.scm (r-edaseq): New variable.
|
2017-05-22 18:54:59 +02:00 |
|
Ricardo Wurmus
|
7b46532779
|
gnu: Add r-deseq.
* gnu/packages/bioinformatics.scm (r-deseq): New variable.
|
2017-05-22 18:54:59 +02:00 |
|
Ricardo Wurmus
|
d4b83651d1
|
gnu: Add r-aroma-light.
* gnu/packages/bioinformatics.scm (r-aroma-light): New variable.
|
2017-05-22 18:54:58 +02:00 |
|
Ben Woodcroft
|
74297231be
|
gnu: fraggenescan: Update to 1.30.
* gnu/packages/bioinformatics.scm (fraggenescan): Update to 1.30.
[arguments]: Update patching of paths, install procedure. Add new test
case.
|
2017-05-22 11:44:20 +01:00 |
|
Ben Woodcroft
|
7569613076
|
gnu: roary: Update to 3.8.2.
* gnu/packages/bioinformatics.scm (roary): Update to 3.8.2.
|
2017-05-22 11:44:20 +01:00 |
|
Ben Woodcroft
|
3cbfc149c3
|
gnu: taxtastic: Update to 0.6.4.
* gnu/packages/bioinformatics.scm (taxtastic): Update to 0.6.4.
[source]: Use PyPI URI.
|
2017-05-22 11:44:19 +01:00 |
|
Roel Janssen
|
b458413721
|
gnu: r-mutationalpatterns: Update to 1.2.1.
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Update to 1.2.1.
|
2017-05-22 09:44:08 +02:00 |
|
Ben Woodcroft
|
ef81341f0e
|
gnu: diamond: Update to 0.9.0.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.0.
[license]: Change to AGPL3+.
|
2017-05-21 16:08:03 +01:00 |
|
Ben Woodcroft
|
88682c9a72
|
gnu: fasttree: Update to 2.1.10.
* gnu/packages/bioinformatics.scm (fasttree): Update to 2.1.10.
|
2017-05-21 15:42:08 +01:00 |
|
Ben Woodcroft
|
abc08cbae6
|
gnu: python-biom-format: Update to 2.1.6.
* gnu/packages/bioinformatics.scm (python-biom-format): Update to 2.1.6.
[propagated-inputs]: Add python-pandas.
|
2017-05-21 15:42:08 +01:00 |
|
Pjotr Prins
|
2b18ad054c
|
gnu: Add gemma.
* gnu/packages/bioinformatics.scm (gemma): New variable.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
|
2017-05-18 14:22:03 +02:00 |
|
Ludovic Courtès
|
2252f087d4
|
gnu: guile-json: Rename "guile2.2-json" to "guile-json".
* gnu/packages/guile.scm (guile-json)[native-inputs]: Change GUILE-2.0
to GUILE-2.2.
(guile2.2-json): Define using 'deprecated-package'.
(guile2.0-json): New variable.
* gnu/packages/bioinformatics.scm (rcas-web)[inputs]: Update accordingly.
* gnu/packages/ci.scm (cuirass)[inputs]: Likewise.
* gnu/packages/package-management.scm (guix)[inputs]: Likewise.
|
2017-05-13 22:25:22 +02:00 |
|
Ben Woodcroft
|
c033f5d6b5
|
gnu: Add pplacer.
* gnu/packages/bioinformatics.scm (pplacer, pplacer-scripts): New
variables.
|
2017-05-10 22:13:55 +02:00 |
|
Ben Woodcroft
|
ad0ae297d4
|
gnu: Add taxtastic.
* gnu/packages/bioinformatics.scm (taxtastic): New variable.
|
2017-05-10 22:13:55 +02:00 |
|
Petter
|
2f3108ad03
|
gnu: Avoid circular dependencies by Perl license.
* guix/licenses.scm (perl-license): New variable.
* gnu/packages/bioinformatics.scm: Change (package-license perl) to perl-license.
* gnu/packages/compression.scm: Same.
* gnu/packages/databases.scm: Same.
* gnu/packages/gd.scm: Same.
* gnu/packages/language.scm: Same.
* gnu/packages/libevent.scm: Same.
* gnu/packages/mail.scm: Same.
* gnu/packages/messaging.scm: Same.
* gnu/packages/ncurses.scm: Same.
* gnu/packages/networking.scm: Same.
* gnu/packages/photo.scm: Same.
* gnu/packages/tcl.scm: Same.
* gnu/packages/tex.scm: Same.
* gnu/packages/tls.scm: Same.
* gnu/packages/web.scm: Same.
* gnu/packages/wm.scm: Same.
* gnu/packages/xml.scm: Same.
* gnu/packages/xorg.scm: Same.
* gnu/packages/zip.scm: Same.
Signed-off-by: Ludovic Courtès <ludo@gnu.org>
|
2017-05-02 23:41:14 +02:00 |
|
Roel Janssen
|
f432254237
|
gnu: vcftools: Update to 0.1.15.
* gnu/packages/bioinformatics.scm (vcftools): Update to 0.1.15.
|
2017-05-01 16:18:39 +02:00 |
|
Efraim Flashner
|
90f83099e8
|
gnu: r-genomeinfodbdata: Fix source url.
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata)[source]: Use
source uri and not bioconductor-uri shortener.
|
2017-04-29 22:53:43 +03:00 |
|
Roel Janssen
|
524bfe2dbf
|
gnu: r-msnid: Update to 1.10.0.
* gnu/packages/bioinformatics.scm (r-msnid): Update to 1.10.0.
|
2017-04-28 11:05:42 +02:00 |
|
Roel Janssen
|
82359c72cb
|
gnu: r-msnbase: Update to 2.2.0.
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.2.0.
|
2017-04-28 11:05:41 +02:00 |
|
Roel Janssen
|
5bfa6e090d
|
gnu: r-pcamethods: Update to 1.68.0.
* gnu/packages/bioinformatics.scm (r-pcamethods): Update to 1.68.0.
|
2017-04-28 11:05:40 +02:00 |
|
Roel Janssen
|
63bf2102cd
|
gnu: r-mzid: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-mzid): Update to 1.14.0.
|
2017-04-28 11:05:38 +02:00 |
|
Roel Janssen
|
60c08b2ff4
|
gnu: r-vsn: Update to 3.44.0.
* gnu/packages/bioinformatics.scm (r-vsn):
[source]: Update to 3.44.0,
[propagated-inputs]: Add r-hexbin.
|
2017-04-28 11:05:37 +02:00 |
|
Roel Janssen
|
bd3cc4cc52
|
gnu: r-affy: Update to 1.54.0.
* gnu/packages/bioinformatics.scm (r-affy): Update to 1.54.0.
|
2017-04-28 11:05:37 +02:00 |
|
Roel Janssen
|
71abcc4cbf
|
gnu: r-affyio: Update to 1.46.0.
* gnu/packages/bioinformatics.scm (r-affyio): Update to 1.46.0.
|
2017-04-28 11:05:36 +02:00 |
|
Roel Janssen
|
e440ad6d4f
|
gnu: r-mzr: Update to 2.10.0.
* gnu/packages/bioinformatics.scm (r-mzr): Update to 2.10.0.
|
2017-04-28 11:05:35 +02:00 |
|
Roel Janssen
|
5b1337cc60
|
gnu: r-protgenerics: Update to 1.8.0.
* gnu/packages/bioinformatics.scm (r-protgenerics): Update to 1.8.0.
|
2017-04-28 11:05:33 +02:00 |
|
Roel Janssen
|
1d09d017db
|
gnu: r-sva: Update to 3.24.0.
* gnu/packages/bioinformatics.scm (r-sva): Update to 3.24.0.
|
2017-04-28 11:05:20 +02:00 |
|