Ricardo Wurmus
|
31c41a8cfe
|
gnu: vsearch: Remove custom autogen phase.
* gnu/packages/bioinformatics.scm (vsearch)[arguments]: Remove.
|
2018-11-08 09:04:34 +01:00 |
|
Ricardo Wurmus
|
c527d36f02
|
gnu: java-picard-1.113: Use INVOKE.
* gnu/packages/bioinformatics.scm (java-picard-1.113)[arguments]: Use INVOKE
and return #T unconditionally.
|
2018-11-08 09:02:34 +01:00 |
|
Ricardo Wurmus
|
e438c96558
|
gnu: fraggenescan: Use INVOKE.
* gnu/packages/bioinformatics.scm (fraggenescan)[arguments]: Use INVOKE in
build phases and return #T unconditionally.
|
2018-11-08 08:58:46 +01:00 |
|
Ricardo Wurmus
|
c098c49b3e
|
gnu: sailfish: Fetch sources from git.
* gnu/packages/bioinformatics.scm (sailfish)[source]: Fetch from git.
|
2018-11-08 08:53:54 +01:00 |
|
Ricardo Wurmus
|
4031e7f1ec
|
gnu: ngs-sdk: Fetch sources from git.
* gnu/packages/bioinformatics.scm (ngs-sdk)[source]: Fetch from git.
|
2018-11-08 08:53:53 +01:00 |
|
Ricardo Wurmus
|
6a7d9ee39f
|
gnu: ncbi-vdb: Use INVOKE and end phases on #T.
* gnu/packages/bioinformatics.scm (ncbi-vdb)[arguments]: Use INVOKE and
unconditionally end phases with #T.
|
2018-11-08 08:53:53 +01:00 |
|
Ricardo Wurmus
|
3398dfb764
|
gnu: ncbi-vdb: Fetch sources from git.
* gnu/packages/bioinformatics.scm (ncbi-vdb)[source]: Fetch from git.
[arguments]: Add phase to make checkout writable.
|
2018-11-08 08:53:53 +01:00 |
|
Ricardo Wurmus
|
e0f1aa2d2b
|
gnu: tadbit: Fetch sources from git.
* gnu/packages/bioinformatics.scm (tadbit)[source]: Fetch from git.
[version]: Use "2.0.0" instead of "2.0".
|
2018-11-08 08:53:50 +01:00 |
|
Kei Kebreau
|
ed33049cdc
|
gnu: pspp: Update to 1.2.0.
* gnu/packages/statistics.scm (pspp): Update to 1.2.0.
[inputs]: Add spread-sheet-widget.
[native-inputs]: Add autoconf, python-2, and texinfo.
|
2018-11-07 17:46:25 -05:00 |
|
Kei Kebreau
|
e2f36385d3
|
gnu: Add spread-sheet-widget.
* gnu/packages/gtk.scm (spread-sheet-widget): New public variable.
|
2018-11-07 17:46:25 -05:00 |
|
Ricardo Wurmus
|
f3f34b132c
|
gnu: filevercmp: Fetch sources from git.
* gnu/packages/bioinformatics.scm (filevercmp)[source]: Fetch from git.
[arguments]: Add #T to the end of the install phase.
|
2018-11-07 23:17:36 +01:00 |
|
Ricardo Wurmus
|
3b888065da
|
gnu: ritornello: Update to 2.0.1.
* gnu/packages/bioinformatics.scm (ritornello): Update to 2.0.1.
[arguments]: Adjust file patching.
|
2018-11-07 23:17:36 +01:00 |
|
Ricardo Wurmus
|
7145f4e519
|
gnu: ritornello: Fetch sources from git.
* gnu/packages/bioinformatics.scm (ritornello)[source]: Fetch from git.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
e0a8fc85dd
|
gnu: snap-aligner: Fetch sources from git.
* gnu/packages/bioinformatics.scm (snap-aligner)[source]: Fetch from git.
[arguments]: Use INVOKE.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
6236524409
|
gnu: sortmerna: Fetch sources from git.
* gnu/packages/bioinformatics.scm (sortmerna)[source]: Fetch from git.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
273df99d7d
|
gnu: vsearch: Fetch source from git.
* gnu/packages/bioinformatics.scm (vsearch)[source]: Fetch from git.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
67caa4b773
|
gnu: preseq: Update to 2.0.3.
* gnu/packages/bioinformatics.scm (preseq): Update to 2.0.3.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
37e285be43
|
gnu: preseq: Fetch sources from git.
* gnu/packages/bioinformatics.scm (preseq)[source]: Fetch from git.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
63f3255e13
|
gnu: seqtk: Update to 1.3.
* gnu/packages/bioinformatics.scm (seqtk): Update to 1.3.
[source]: Remove outdated snippet.
[arguments]: Use INVOKE and return #T unconditionally.
|
2018-11-07 23:17:35 +01:00 |
|
Ricardo Wurmus
|
019fcdf20a
|
gnu: seqtk: Fetch sources from git.
* gnu/packages/bioinformatics.scm (seqtk)[source]: Fetch from git.
|
2018-11-07 23:17:34 +01:00 |
|
Ricardo Wurmus
|
b9d0c3564b
|
gnu: raxml: Update to 8.2.12.
* gnu/packages/bioinformatics.scm (raxml): Update to 8.2.12.
|
2018-11-07 23:17:34 +01:00 |
|
Ricardo Wurmus
|
d9ba126d17
|
gnu: python2-biom-format: Fix build.
This is a follow-up to commit 239716fb0b.
* gnu/packages/bioinformatics.scm (python2-biom-format)[arguments]: Modify
phases of base package.
|
2018-11-07 23:17:34 +01:00 |
|
Ricardo Wurmus
|
4715d4af17
|
gnu: raxml: Fetch sources from git.
* gnu/packages/bioinformatics.scm (raxml)[source]: Fetch from git.
|
2018-11-07 23:17:34 +01:00 |
|
Ricardo Wurmus
|
5e242b02c3
|
gnu: pyicoteo: Fetch sources from git.
* gnu/packages/bioinformatics.scm (pyicoteo)[source]: Fetch from git.
|
2018-11-07 23:17:34 +01:00 |
|
Efraim Flashner
|
b44b1f08f6
|
gnu: hplip: Remove bundled non-free blobs.
This fixes <https://bugs.gnu.org/32184>.
* gnu/packages/cups.scm (hplip)[source]: Add patch. Update snippet to
remove non-free code and binary blobs.
* gnu/packages/patches/hplip-remove-imageprocessor.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.
|
2018-11-07 23:16:02 +02:00 |
|
Ricardo Wurmus
|
2b773a9273
|
gnu: sra-tools: Fetch sources from git.
* gnu/packages/bioinformatics.scm (sra-tools)[source]: Fetch from git.
|
2018-11-07 21:41:56 +01:00 |
|
Ricardo Wurmus
|
55698df260
|
gnu: libgff: Fetch sources from git.
* gnu/packages/bioinformatics.scm (libgff)[source]: Fetch from git.
|
2018-11-07 21:41:56 +01:00 |
|
Ricardo Wurmus
|
4257c10ad2
|
gnu: kentutils: Fetch sources from git.
* gnu/packages/bioinformatics.scm (kentutils)[source]: Fetch from git.
[arguments]: Add phase "fix-permissions".
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
1a20bcadf3
|
gnu: r-seqgl: Fetch sources from git.
* gnu/packages/bioinformatics.scm (r-seqgl)[source]: Fetch from git.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
a2b9d6a8d0
|
gnu: pplacer: Fetch sources from git.
* gnu/packages/bioinformatics.scm (pplacer)[source]: Fetch from git.
[arguments]: Make files writable; use INVOKE.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
6052264b56
|
gnu: minced: Update to 0.3.2.
* gnu/packages/bioinformatics.scm (minced): Update to 0.3.2.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
9d94ca0ebf
|
gnu: minced: Fetch sources from git.
* gnu/packages/bioinformatics.scm (minced)[source]: Fetch from git.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
b58d9e4aa2
|
gnu: metabat: Fetch sources from git.
* gnu/packages/bioinformatics.scm (metabat)[source]: Fetch from git.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
5c1f35e71b
|
gnu: mash: Update to 2.1.
* gnu/packages/bioinformatics.scm (mash): Update to 2.1.
|
2018-11-07 21:41:55 +01:00 |
|
Ricardo Wurmus
|
497fc04d8f
|
gnu: mash: Fetch sources from git.
* gnu/packages/bioinformatics.scm (mash)[source]: Fetch from git.
|
2018-11-07 21:41:55 +01:00 |
|
Marius Bakke
|
b31e156161
|
gnu: fio: Update to 3.11.
* gnu/packages/benchmark.scm (fio): Update to 3.11.
[source]: Use bz2 compressed tarball.
|
2018-11-07 21:09:00 +01:00 |
|
Ricardo Wurmus
|
2dc28391f3
|
gnu: kaiju: Update to 1.6.3.
* gnu/packages/bioinformatics.scm (kaiju): Update to 1.6.3.
|
2018-11-07 20:47:22 +01:00 |
|
Ricardo Wurmus
|
6fe323bf2e
|
gnu: kaiju: Fetch sources from git.
* gnu/packages/bioinformatics.scm (kaiju)[source]: Fetch from git.
[arguments]: Remove redundant installation step.
|
2018-11-07 20:46:36 +01:00 |
|
Ricardo Wurmus
|
f0731591a5
|
gnu: idr: Fetch sources from git.
* gnu/packages/bioinformatics.scm (idr)[source]: Fetch from git.
|
2018-11-07 20:41:58 +01:00 |
|
Ricardo Wurmus
|
b8a6230df3
|
gnu: java-htsjdk: Fetch sources from git.
* gnu/packages/bioinformatics.scm (java-htsjdk)[source]: Fetch from git.
|
2018-11-07 20:36:07 +01:00 |
|
Ricardo Wurmus
|
57be690d91
|
gnu: hisat2: Use versioned source URL.
* gnu/packages/bioinformatics.scm (hisat2)[source]: Use versioned URL.
|
2018-11-07 20:32:29 +01:00 |
|
Ricardo Wurmus
|
c8f02c1dcb
|
gnu: grit: Update to 2.0.5.
* gnu/packages/bioinformatics.scm (grit): Update to 2.0.5.
[arguments]: Simplify.
|
2018-11-07 20:30:44 +01:00 |
|
Ricardo Wurmus
|
8d75adbf03
|
gnu: grit: Fetch sources from git.
* gnu/packages/bioinformatics.scm (grit)[source]: Fetch from git.
|
2018-11-07 20:27:10 +01:00 |
|
Ricardo Wurmus
|
152bebd9e0
|
gnu: gemma: Update to 0.98.
* gnu/local.mk (dist_patch_DATA): Remove patch.
* gnu/packages/patches/gemma-intel-compat.patch: Remove file.
* gnu/packages/bioinformatics.scm (gemma): Update to 0.98.
[source]: Remove patch.
[inputs]: Add eigen, gfortran:lib, and openblas.
[arguments]: Add phase "find-eigen".
|
2018-11-07 20:26:46 +01:00 |
|
Ricardo Wurmus
|
b113f39019
|
gnu: gemma: Fetch sources from git.
* gnu/packages/bioinformatics.scm (gemma)[source]: Fetch from git.
|
2018-11-07 20:26:45 +01:00 |
|
Pierre Langlois
|
f09e8abc5e
|
gnu: clementine: Build with sqlite-with-column-metadata.
* gnu/packages/music.scm (clementine)[inputs]: Use sqlite-with-column-metadata.
Signed-off-by: Leo Famulari <leo@famulari.name>
|
2018-11-07 14:25:07 -05:00 |
|
Ricardo Wurmus
|
91b71cfbba
|
gnu: fxtract: Fetch sources from git.
* gnu/packages/bioinformatics.scm (fxtract)[source]: Fetch from git.
|
2018-11-07 19:55:50 +01:00 |
|
Ricardo Wurmus
|
7ca49ab57a
|
gnu: ribodiff: Fetch sources from git.
* gnu/packages/bioinformatics.scm (ribodiff)[source]: Fetch from git.
|
2018-11-07 19:48:21 +01:00 |
|
Ricardo Wurmus
|
239716fb0b
|
gnu: python-biom-format: Update to 2.1.7.
* gnu/packages/bioinformatics.scm (python-biom-format): Update to 2.1.7.
[arguments]: Add phases "use-cython", "disable-broken-test", and
"make-files-writable".
[propagated-inputs]: Add python-flake8.
[native-inputs]: Add python-cython, python-pytest, and python-pytest-cov.
|
2018-11-07 19:47:07 +01:00 |
|
Ricardo Wurmus
|
007a81d5cf
|
gnu: python-biom-format: Fetch source from git.
* gnu/packages/bioinformatics.scm (python-biom-format)[source]: Fetch from
git.
|
2018-11-07 19:10:36 +01:00 |