Roel Janssen
|
c2e26dc156
|
gnu: r-ensembldb: Update to 2.6.2.
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.2.
|
2018-11-19 16:46:32 +01:00 |
|
Roel Janssen
|
e038819138
|
gnu: r-msnbase: Update to 2.8.1.
* gnu/packages/bioinformatics.scm (r-msnbase): Update to 2.8.1.
|
2018-11-19 16:46:00 +01:00 |
|
Roel Janssen
|
4535a7b0f5
|
gnu: r-genomeinfodb: Update to 1.18.1.
* gnu/packages/bioinformatics.scm (r-genomeinfodb): Update to 1.18.1.
|
2018-11-19 16:33:35 +01:00 |
|
pimi
|
30f0d21b40
|
gnu: Add nanopolish.
* gnu/packages/bioinformatics.scm (nanopolish): New variable.
Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
|
2018-11-15 22:23:57 +01:00 |
|
Roel Janssen
|
2d86eaff5b
|
gnu: sambamba: Update to 0.6.8.
* gnu/packages/bioinformatics.scm (sambamba): Update to 0.6.8.
|
2018-11-15 13:09:01 +01:00 |
|
Ricardo Wurmus
|
ee66a13563
|
gnu: Add jamm.
* gnu/packages/bioinformatics.scm (jamm): New variable.
|
2018-11-14 15:13:20 +01:00 |
|
Ricardo Wurmus
|
51b262f310
|
gnu: r-txdb-mmusculus-ucsc-mm10-knowngene: Update to 3.4.4.
* gnu/packages/bioinformatics.scm (r-txdb-mmusculus-ucsc-mm10-knowngene):
Update to 3.4.4.
|
2018-11-13 23:34:40 +01:00 |
|
Ricardo Wurmus
|
d34959b8d4
|
gnu: r-org-mm-eg-db: Update to 3.7.0.
* gnu/packages/bioinformatics.scm (r-org-mm-eg-db): Update to 3.7.0.
|
2018-11-13 23:34:40 +01:00 |
|
Ricardo Wurmus
|
314511b862
|
gnu: r-org-dm-eg-db: Update to 3.7.0.
* gnu/packages/bioinformatics.scm (r-org-dm-eg-db): Update to 3.7.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
76bd16bcf6
|
gnu: r-org-ce-eg-db: Update to 3.7.0.
* gnu/packages/bioinformatics.scm (r-org-ce-eg-db): Update to 3.7.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
fc7683fa30
|
gnu: r-org-hs-eg-db: Update to 3.7.0.
* gnu/packages/bioinformatics.scm (r-org-hs-eg-db): Update to 3.7.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
cb9e6ed702
|
gnu: r-genomationdata: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-genomationdata): Update to 1.14.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
13e70f6304
|
gnu: r-go-db: Update to 3.7.0.
* gnu/packages/bioinformatics.scm (r-go-db): Update to 3.7.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
13a574652b
|
gnu: r-genomeinfodbdata: Update to 1.2.0.
* gnu/packages/bioinformatics.scm (r-genomeinfodbdata): Update to 1.2.0.
|
2018-11-13 23:34:39 +01:00 |
|
Ricardo Wurmus
|
5f9b38ba34
|
gnu: r-s4vectors: Update to 0.20.1.
* gnu/packages/bioinformatics.scm (r-s4vectors): Update to 0.20.1.
|
2018-11-11 23:13:48 +01:00 |
|
Ricardo Wurmus
|
03a415365a
|
gnu: r-ensembldb: Update to 2.6.1.
* gnu/packages/bioinformatics.scm (r-ensembldb): Update to 2.6.1.
|
2018-11-09 19:41:54 +01:00 |
|
Ricardo Wurmus
|
88514b9124
|
gnu: r-biostrings: Update to 2.50.1.
* gnu/packages/bioinformatics.scm (r-biostrings): Update to 2.50.1.
|
2018-11-09 19:41:53 +01:00 |
|
Ricardo Wurmus
|
77bea84ba1
|
gnu: r-biocviews: Update to 1.50.5.
* gnu/packages/bioinformatics.scm (r-biocviews): Update to 1.50.5.
|
2018-11-09 19:41:53 +01:00 |
|
Ricardo Wurmus
|
a1e83a9856
|
gnu: pplacer-scripts: Use INVOKE.
* gnu/packages/bioinformatics.scm (pplacer-scripts)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 10:06:35 +01:00 |
|
Ricardo Wurmus
|
ce49fdcce9
|
gnu: roary: Use INVOKE.
* gnu/packages/bioinformatics.scm (roary)[arguments]: Use INVOKE and return #T
unconditionally.
|
2018-11-08 09:58:05 +01:00 |
|
Ricardo Wurmus
|
a9542937c8
|
gnu: seek: Use INVOKE.
* gnu/packages/bioinformatics.scm (seek)[arguments]: Use INVOKE and return #T
unconditionally; patch "gen_tools_am" shebang in "bootstrap" phase.
|
2018-11-08 09:54:22 +01:00 |
|
Ricardo Wurmus
|
9f527c9199
|
gnu: sailfish: Use INVOKE.
* gnu/packages/bioinformatics.scm (sailfish)[arguments]: Use INVOKE instead of
SYSTEM*.
|
2018-11-08 09:52:46 +01:00 |
|
Ricardo Wurmus
|
86c6928ea3
|
gnu: vsearch: Update to 2.9.1.
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.9.1.
* gnu/packages/patches/vsearch-unbundle-cityhash.patch: Update.
|
2018-11-08 09:46:42 +01:00 |
|
Ricardo Wurmus
|
15c9609482
|
gnu: sra-tools: Update to 2.9.3.
* gnu/packages/bioinformatics.scm (sra-tools): Update to 2.9.3.
[arguments]: Remove build phase patch-away-glibc-conflict.
|
2018-11-08 09:46:05 +01:00 |
|
Ricardo Wurmus
|
b17333414f
|
gnu: plink-ng: Fetch sources from git.
* gnu/packages/bioinformatics.scm (plink-ng)[source]: Fetch from git.
|
2018-11-08 09:30:59 +01:00 |
|
Ricardo Wurmus
|
87408854ec
|
gnu: ncbi-vdb: Update to 2.9.3.
* gnu/packages/bioinformatics.scm (ncbi-vdb): Update to 2.9.3.
|
2018-11-08 09:30:16 +01:00 |
|
Ricardo Wurmus
|
8d3eaa9262
|
gnu: ngs-sdk: Update to 2.9.3.
* gnu/packages/bioinformatics.scm (ngs-sdk): Update to 2.9.3.
|
2018-11-08 09:29:58 +01:00 |
|
Ricardo Wurmus
|
3da3cedf76
|
gnu: ngs-sdk: Use INVOKE.
* gnu/packages/bioinformatics.scm (ngs-sdk)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 09:15:05 +01:00 |
|
Ricardo Wurmus
|
e78e54d029
|
gnu: emboss: Use INVOKE.
* gnu/packages/bioinformatics.scm (emboss)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 09:14:09 +01:00 |
|
Ricardo Wurmus
|
8b685c4720
|
gnu: taxtastic: Use INVOKE.
* gnu/packages/bioinformatics.scm (taxtastic)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 09:13:35 +01:00 |
|
Ricardo Wurmus
|
2e2d88539c
|
gnu: sra-tools: Use INVOKE.
* gnu/packages/bioinformatics.scm (sra-tools)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 09:12:43 +01:00 |
|
Ricardo Wurmus
|
179416467f
|
gnu: muscle: Use INVOKE.
* gnu/packages/bioinformatics.scm (muscle)[arguments]: Use INVOKE and
return #T unconditionally.
|
2018-11-08 09:11:38 +01:00 |
|
Ricardo Wurmus
|
0881d62f25
|
gnu: newick-utils: Remove custom autoconf phase.
* gnu/packages/bioinformatics.scm (newick-utils)[arguments]: Remove.
|
2018-11-08 09:10:58 +01:00 |
|
Ricardo Wurmus
|
e35dce0170
|
gnu: mash: Remove custom autoconf phase.
* gnu/packages/bioinformatics.scm (mash)[arguments]: Remove autoconf phase.
|
2018-11-08 09:10:20 +01:00 |
|
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 |
|
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 |