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313,677 Commits 96 Branches 102 Tags 4.4 GiB
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Commit Graph

631 Commits

Author SHA1 Message Date
davidak
1b78608c69
Merge pull request #135516 from bzizou/stacks 
stacks: Changed license to gpl3Plus
 2021-08-26 03:50:48 +02:00
Justin Bedo
b1b57ec04e
fastp: 0.20.1 -> 0.22.0 2021-08-25 09:52:07 +10:00
Ryan Mulligan
8c2e2ffe95
Merge pull request #135212 from r-ryantm/auto-update/stacks 
stacks: 2.55 -> 2.59
 2021-08-24 09:03:17 -07:00
Bruno Bzeznik
a240cd9f4f stacks: Changed license to gpl3Plus 2021-08-24 09:47:24 +02:00
Ryan Mulligan
997f4452a4
Merge pull request #135255 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.7 -> 2.26.0
 2021-08-23 20:56:38 -07:00
Jörg Thalheim
11e5c3ac4b bowtie: fix homepage 2021-08-22 16:08:28 +02:00
R. RyanTM
742cd80071 picard-tools: 2.25.7 -> 2.26.0 2021-08-22 10:47:38 +00:00
R. RyanTM
67c1256ddd stacks: 2.55 -> 2.59 2021-08-22 07:08:39 +00:00
Sebastián Mancilla
8f94a33b38 treewide: ensure pre/post phase hooks are strings 
Some derivations use lib.optional or lib.optionals when setting pre/post
phase hooks. Ensure the proper lib.optionalString is used.
 2021-08-20 19:08:42 -04:00
Ryan Mulligan
ad59a67ec0
Merge pull request #134444 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.1 -> 2.25.7
 2021-08-17 16:47:31 -07:00
R. RyanTM
1a23a8bb9e picard-tools: 2.25.1 -> 2.25.7 2021-08-17 13:50:42 +00:00
R. RyanTM
5693a554e2 minimap2: 2.17 -> 2.22 2021-08-14 15:55:35 +00:00
Artturi
e69c8ea78e
Merge pull request #111691 from jbedo/bowtie2 
bowtie2: resolve missing runtime dependencies
 2021-08-07 04:03:47 +03:00
Sandro
04b5e62d8d
Merge pull request #132468 from Stunkymonkey/applications-phases1 2021-08-05 09:37:57 +02:00
Felix Buehler
be219752d2 picard-tools: deprecate phases 2021-08-03 00:04:29 +02:00
Felix Buehler
4b883542fe varscan: deprecate phases 2021-08-03 00:04:16 +02:00
Artturin
f173c77476 perlPackages.ImageMagick: rename from perlPackages.PerlMagick 2021-08-02 20:05:00 +03:00
Sandro
1524f36b3e
Merge pull request #131627 from jbedo/mosdepth 
mosdepth: 0.3.1 -> 0.3.2
 2021-07-29 13:56:24 +00:00
Sandro Jäckel
cebfbdff37
mrbayes: 3.2.7 -> 3.2.7a 2021-07-27 14:30:23 +02:00
Sandro Jäckel
108ad942fb
mrbayes: modernize 2021-07-27 11:53:51 +02:00
Justin Bedo
d885373469
mosdepth: 0.3.1 -> 0.3.2 2021-07-27 09:52:22 +10:00
R. RyanTM
d943e6aa12 bedops: 2.4.39 -> 2.4.40 2021-07-23 01:02:40 +00:00
Sandro
d5bd34ebf2
treewide: convert phases that contain ":" to dont* = true (#130500) 2021-07-18 23:42:48 +02:00
R. RyanTM
7177212409 bcftools: 1.11 -> 1.13 2021-07-10 10:15:10 +00:00
scalavision
c6ca3545ae
truvari: 2.0.2 -> 2.1.1 (#126839) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-06-15 22:14:20 +02:00
R. RyanTM
089915f634 bowtie2: 2.4.3 -> 2.4.4 2021-05-26 23:43:08 -07:00
Stéphan Kochen
c47425a230 sambamba: fix darwin build 2021-05-22 20:56:09 +02:00
Stéphan Kochen
20f36556dc samblaster: fix darwin build 2021-05-18 13:41:51 +02:00
Sandro
83c5d21320
Merge pull request #123083 from stephank/fix-est-sfs-darwin 
est-sfs: fix darwin build
 2021-05-17 18:58:33 +02:00
R. RyanTM
9528bf9fd9 bowtie2: 2.4.2 -> 2.4.3 2021-05-16 02:53:03 -04:00
Stéphan Kochen
d707979a73 est-sfs: fix darwin build 2021-05-15 12:10:05 +02:00
Stéphan Kochen
2adca7ae14
cd-hit: fix darwin build (#123026) 2021-05-14 17:27:16 -04:00
Justin Bedo
40eeb2c6d3
octopus: 0.7.3 -> 0.7.4 2021-05-11 08:46:00 +10:00
Luke Granger-Brown
884cf29501 dcm2niix: 1.0.20201102 -> 1.0.20210317 2021-05-02 11:10:40 +00:00
R. RyanTM
ad5f251230 dcm2niix: 1.0.20200331 -> 1.0.20201102 2021-05-02 03:14:11 +00:00
Justin Bedo
def7c82f88
octopus: 0.7.1 -> 0.7.3 2021-04-20 10:13:25 +10:00
Sandro
28fb287d4b
Merge pull request #118610 from GregorySchwartz/init/macs2 2021-04-14 21:15:38 +02:00
Gregory W. Schwartz
b7763a8287 macs2: init at 2.2.7.1 
Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Renamed package, updated version, set pypi, and added import test.

Update pkgs/applications/science/biology/MACS2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Add comment about error for checking.

Two spaces indent.
 2021-04-14 10:17:53 -04:00
Gregory Schwartz
9bf867612d
meme-suite: init at 5.1.1 (#118603) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-04-05 22:43:27 +02:00
Sandro Jäckel
3453b89f4b
lzma: deprecate alias 2021-04-04 19:49:52 +02:00
Ryan Mulligan
f3262c2a3e
Merge pull request #117648 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.0 -> 2.25.1
 2021-03-29 16:10:25 -07:00
Justin Bedo
76bd953162 bedops: init 2.4.39 2021-03-28 22:27:51 -04:00
R. RyanTM
49e4c1e323 picard-tools: 2.25.0 -> 2.25.1 2021-03-26 03:16:44 +00:00
Frederik Rietdijk
5a5cb718a5 bedtools: use python3 2021-03-25 10:42:32 +01:00
Frederik Rietdijk
2c00aed6b1 bcftools: use python3 2021-03-25 10:39:47 +01:00
Bruno Bzeznik
f0eef16f9c SPAdes: 3.15.1 -> 3.15.2 + fix license and platform 2021-03-23 10:51:01 +01:00
Jan Tojnar
2445e9a681
Merge branch 'master' into staging-next 2021-03-18 19:24:39 +01:00
Thomas Mader
09acdfde94
sambamba: 0.7.1 -> 0.8.0 
Getting rid of dmd dependency and compile with ldc
 2021-03-18 17:41:30 +02:00
Martin Weinelt
0241873f7f
Merge branch 'master' into staging-next 2021-03-14 17:35:32 +01:00
Ryan Mulligan
0e63a1bb33
Merge pull request #115579 from r-ryantm/auto-update/stacks 
stacks: 2.53 -> 2.55
 2021-03-14 07:47:22 -07:00