Ricardo Wurmus
|
e5907a44e1
|
gnu: r-biocgenerics: Update to 0.26.0.
* gnu/packages/bioinformatics.scm (r-biocgenerics): Update to 0.26.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
9370b8ee9f
|
gnu: r-grohmm: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-grohmm): Update to 1.14.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
712fe39680
|
gnu: r-systempiper: Update to 1.14.0.
* gnu/packages/bioinformatics.scm (r-systempiper): Update to 1.14.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
eabe78faca
|
gnu: r-shortread: Update to 1.38.0.
* gnu/packages/bioinformatics.scm (r-shortread): Update to 1.38.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
9da8e275ca
|
gnu: r-gostats: Update to 2.46.0.
* gnu/packages/bioinformatics.scm (r-gostats): Update to 2.46.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
d8410d6610
|
gnu: r-category: Update to 2.46.0.
* gnu/packages/bioinformatics.scm (r-category): Update to 2.46.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
f1094f50a7
|
gnu: r-gseabase: Update to 1.42.0.
* gnu/packages/bioinformatics.scm (r-gseabase): Update to 1.42.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
9177ac2295
|
gnu: r-rbgl: Update to 1.56.0.
* gnu/packages/bioinformatics.scm (r-rbgl): Update to 1.56.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
5516db9e70
|
gnu: r-annotationforge: Update to 1.22.0.
* gnu/packages/bioinformatics.scm (r-annotationforge): Update to 1.22.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
16da69b5e6
|
gnu: r-dexseq: Update to 1.26.0.
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.26.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
51c1f96ebc
|
gnu: r-deseq2: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-deseq2): Update to 1.20.0.
|
2018-06-02 13:39:07 +02:00 |
|
Ricardo Wurmus
|
41657b15f4
|
gnu: r-genefilter: Update to 1.62.0.
* gnu/packages/bioinformatics.scm (r-genefilter): Update to 1.62.0.
|
2018-06-02 13:39:06 +02:00 |
|
Ricardo Wurmus
|
4d70c8c486
|
gnu: r-geneplotter: Update to 1.58.0.
* gnu/packages/bioinformatics.scm (r-geneplotter): Update to 1.58.0.
|
2018-06-02 13:39:06 +02:00 |
|
Ricardo Wurmus
|
14e9235f0c
|
gnu: r-copynumber: Update to 1.20.0.
* gnu/packages/bioinformatics.scm (r-copynumber): Update to 1.20.0.
|
2018-06-02 13:39:06 +02:00 |
|
Ricardo Wurmus
|
02be818044
|
gnu: r-annotate: Update to 1.58.0.
* gnu/packages/bioinformatics.scm (r-annotate): Update to 1.58.0.
|
2018-06-02 13:39:06 +02:00 |
|
Ricardo Wurmus
|
ce8b9e3b1c
|
gnu: r-seurat: Update to 2.3.1.
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.1.
[propagated-inputs]: Remove r-gridextra; add r-reticulate.
|
2018-05-31 13:21:31 +02:00 |
|
Ricardo Wurmus
|
3ca317359c
|
gnu: r-vegan: Update to 2.5-2.
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-2.
|
2018-05-31 13:21:31 +02:00 |
|
Ricardo Wurmus
|
a1b802454a
|
gnu: Add fastp.
* gnu/packages/bioinformatics.scm (fastp): New variable.
|
2018-05-24 17:49:32 +02:00 |
|
Ricardo Wurmus
|
a4ab65ee79
|
gnu: pigx-scrnaseq: Update to 0.0.4.
* gnu/packages/bioinformatics.scm (pigx-scrnaseq): Update to 0.0.4.
|
2018-05-23 15:27:32 +02:00 |
|
Ricardo Wurmus
|
0f5ad3a1bc
|
gnu: bismark: Patch bismark2report before installing.
* gnu/packages/bioinformatics.scm (bismark)[arguments]: Patch file before
installing it.
|
2018-05-22 16:05:41 +02:00 |
|
Tobias Geerinckx-Rice
|
c61d822621
|
gnu: f-seq: Factorise ‘install’ phase.
* gnu/packages/bioinformatics.scm (f-seq)[arguments]: Let-bind more.
|
2018-05-19 05:30:11 +02:00 |
|
Tobias Geerinckx-Rice
|
4ca9581119
|
gnu: multiqc: Fix build.
* gnu/packages/bioinformatics.scm (multiqc)[arguments]: Add a
‘relax-requirements’ phase to fix building with python-matplotlib@2.2.
|
2018-05-17 23:08:30 +02:00 |
|
Ben Woodcroft
|
2c5289b263
|
gnu: diamond: Update to 0.9.22.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.22.
|
2018-05-12 11:01:21 +10:00 |
|
Ricardo Wurmus
|
126c9e3ff7
|
gnu: bismark: Update to 0.19.1.
* gnu/packages/bioinformatics.scm (bismark): Update to 0.19.1.
[source]: Fetch from git; remove non-free software in snippet.
[arguments]: Update install phase.
|
2018-05-09 18:37:33 +02:00 |
|
Ricardo Wurmus
|
f895a7a4d4
|
gnu: trim-galore: Update to 0.4.5.
* gnu/packages/bioinformatics.scm (trim-galore): Update to 0.4.5.
[source]: Fetch from git.
[arguments]: Remove custom unpack phase.
|
2018-05-09 18:37:33 +02:00 |
|
Tobias Geerinckx-Rice
|
a2cfe19041
|
gnu: Use HTTPS for www.boost.org.
* gnu/packages/bioinformatics.scm (libgff)[license]: Use HTTPS.
* gnu/packages/boost.scm (boost-sync)[license]: Likewise.
(boost)[license]: Likewise.
[home-page]: Likewise, and use canonical ‘www’ subdomain.
|
2018-05-01 06:51:15 +02:00 |
|
Roel Janssen
|
dad9556c5d
|
gnu: roary: Update to 3.12.0.
* gnu/packages/bioinformatics.scm (roary): Update to 3.12.0.
|
2018-04-28 01:52:52 +02:00 |
|
Roel Janssen
|
d36d5229ed
|
gnu: star: Update to 2.6.0a.
* gnu/packages/bioinformatics.scm (star): Update to 2.6.0a.
|
2018-04-28 01:24:10 +02:00 |
|
Roel Janssen
|
457fd268ff
|
gnu: multiqc: Update to 1.5.
* gnu/packages/bioinformatics.scm (multiqc): Update to 1.5.
|
2018-04-28 01:10:24 +02:00 |
|
Roel Janssen
|
4b93efec28
|
gnu: express: Link with shared protobuf library.
* gnu/packages/bioinformatics.scm (express): Link with shared protobuf
library.
|
2018-04-28 01:07:15 +02:00 |
|
Roel Janssen
|
4ffa085875
|
gnu: bamtools: Update to 2.5.1.
* gnu/packages/bioinformatics.scm (bamtools): Update to 2.5.1.
|
2018-04-28 00:56:59 +02:00 |
|
Roel Janssen
|
d0c75e73d4
|
gnu: taxtastic: Update to 0.8.5.
* gnu/packages/bioinformatics.scm (taxtastic): Update to 0.8.5.
|
2018-04-28 00:43:16 +02:00 |
|
Ben Woodcroft
|
53ec1b7e8b
|
gnu: vsearch: Update to 2.8.0.
* gnu/packages/bioinformatics.scm (vsearch): Update to 2.8.0.
|
2018-04-27 23:20:00 +10:00 |
|
Ben Woodcroft
|
171cf56c2f
|
gnu: diamond: Update to 0.9.21.
* gnu/packages/bioinformatics.scm (diamond): Update to 0.9.21.
|
2018-04-27 23:20:00 +10:00 |
|
Roel Janssen
|
b43a9eb361
|
gnu: bedops: Update to 2.4.33.
* gnu/packages/bioinformatics.scm (bedops): Update to 2.4.33.
|
2018-04-27 01:11:57 +02:00 |
|
Roel Janssen
|
c829c5ea85
|
gnu: samtools: Update to 1.8.
* gnu/packages/bioinformatics.scm (samtools): Update to 1.8.
|
2018-04-27 01:11:47 +02:00 |
|
Roel Janssen
|
cbd9f91c32
|
gnu: bcftools: Update to 1.8.
* gnu/packages/bioinformatics.scm (bcftools): Update to 1.8.
* gnu/local.mk: Remove patch.
* gnu/packages/patches/bcftools-regidx-unsigned-char.patch: Remove file.
|
2018-04-27 01:11:42 +02:00 |
|
Roel Janssen
|
8df0267ad4
|
gnu: htslib: Update to 1.8.
* gnu/packages/bioinformatics.scm (htslib): Update to 1.8.
|
2018-04-27 01:11:24 +02:00 |
|
Ricardo Wurmus
|
3d7f9cbe75
|
gnu: pigx-chipseq: Update to 0.0.15.
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.0.15.
|
2018-04-22 23:00:51 +02:00 |
|
Ricardo Wurmus
|
c36ce47635
|
gnu: r-seurat: Update to 2.3.0.
* gnu/packages/bioinformatics.scm (r-seurat): Update to 2.3.0.
[propagated-inputs]: Add r-cluster, r-dosnow, r-fitdistrplus, r-foreach,
r-lmtest, r-png, and r-rann.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
aeca5f0c5b
|
gnu: r-scran: Update to 1.6.9.
* gnu/packages/bioinformatics.scm (r-scran): Update to 1.6.9.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
80323c3c13
|
gnu: r-hitc: Update to 1.22.1.
* gnu/packages/bioinformatics.scm (r-hitc): Update to 1.22.1.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
b6d7deca55
|
gnu: r-ldblock: Update to 1.8.1.
* gnu/packages/bioinformatics.scm (r-ldblock): Update to 1.8.1.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
fb1dcfac46
|
gnu: r-erma: Update to 0.10.1.
* gnu/packages/bioinformatics.scm (r-erma): Update to 0.10.1.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
8defca1d94
|
gnu: r-gprofiler: Update to 0.6.6.
* gnu/packages/bioinformatics.scm (r-gprofiler): Update to 0.6.6.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
fc6d3e2606
|
gnu: r-ggbio: Update to 1.26.1.
* gnu/packages/bioinformatics.scm (r-ggbio): Update to 1.26.1.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
0bd5c7b859
|
gnu: r-genomicalignments: Update to 1.14.2.
* gnu/packages/bioinformatics.scm (r-genomicalignments): Update to 1.14.2.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
4207770218
|
gnu: r-dexseq: Update to 1.24.4.
* gnu/packages/bioinformatics.scm (r-dexseq): Update to 1.24.4.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
3db5d04ccc
|
gnu: r-vegan: Update to 2.5-1.
* gnu/packages/bioinformatics.scm (r-vegan): Update to 2.5-1.
[propagated-inputs]: Add r-knitr.
|
2018-04-21 23:07:52 +02:00 |
|
Ricardo Wurmus
|
482959ffa4
|
gnu: sambamba: Update to 0.6.7-10-g223fa20.
* gnu/packages/bioinformatics.scm (sambamba)[source]: Fetch from git.
[arguments]: Disable parallel build; rename build phase "place-biod" to
"place-biod-and-undead"; add build phase "fix-ldc-version"; adjust phase
"unbundle-prerequisites".
[native-inputs]: Add python2-minimal; update biod sources; add undead sources.
|
2018-04-06 17:12:15 +02:00 |
|