JakeHillion/nixpkgs
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458 Commits

Author SHA1 Message Date
Vladimír Čunát
0ecc8b9a56
Merge #97229: picard-tools: 2.23.3 -> 2.23.4 2020-09-07 09:38:34 +02:00
R. RyanTM
cc797c4ab8 star: 2.7.4a -> 2.7.5c 2020-09-05 18:44:51 +00:00
R. RyanTM
1c368b0f13 picard-tools: 2.23.3 -> 2.23.4 2020-09-05 14:02:32 +00:00
Silvan Mosberger
cf47ba66fb
Merge pull request #81129 from scalavision/igv-update-28x 
igv: 2.4.19 -> 2.8.0
 2020-08-23 19:24:33 +02:00
scalavision
78e89143d4
igv: 2.4.19 -> 2.8.9 
Co-Authored-By: Silvan Mosberger <contact@infinisil.com>
 2020-08-23 19:23:04 +02:00
Lassulus
7623640e54
Merge pull request #89868 from r-ryantm/auto-update/star 
star: 2.7.3a -> 2.7.4a
 2020-08-22 13:35:13 +02:00
Lassulus
de25713886
Merge pull request #91647 from jbedo/whisper 
whisper: init at 2.0.1
 2020-08-21 18:09:35 +02:00
Justin Bedo
20c8945467 hisat2: 2.1.0 -> 2.2.1 2020-08-16 13:30:53 +00:00
R. RyanTM
afb809f30b kssd: 1.0 -> 1.1 2020-08-14 15:06:11 +00:00
R. RyanTM
44181da7b7 picard-tools: 2.23.1 -> 2.23.3 2020-08-02 10:04:36 +00:00
Mario Rodas
552a1f9278
itsx: enable on darwin 2020-07-28 13:48:55 -05:00
Mario Rodas
b7c9ca336f
hmmer: enable on darwin 2020-07-28 13:47:34 -05:00
R. RyanTM
58e7ed9d56 hmmer: 3.3 -> 3.3.1 2020-07-28 16:39:23 +00:00
Daniël de Kok
56c841393a sortmerna: 3.0.3 -> 4.2.0 
- Fixes build against rocksdb 6.10.2
- Use dynamic rocksdb and zlib libraries
- Build a dynamic binary
 2020-07-18 18:06:23 +02:00
Ryan Mulligan
891e3cb973
Merge pull request #92575 from r-ryantm/auto-update/seaview 
seaview: 5.0.2 -> 5.0.4
 2020-07-15 21:23:13 -07:00
R. RyanTM
e6113be804 seaview: 5.0.2 -> 5.0.4 2020-07-07 13:30:35 +00:00
Benjamin Hipple
0f94e2413d
Merge pull request #91071 from bcdarwin/minc-tools-build-nifti-tools 
minc-tools: actually build Nifti support
 2020-07-06 17:45:48 -04:00
Ben Darwin
28becad9be minc-tools: actually build Nifti support 2020-07-06 11:09:33 -04:00
Justin Bedo
3139597277
whisper: init at 2.0.1 2020-07-06 18:59:45 +10:00
R. RyanTM
aca998de5e last: 1061 -> 1066 2020-07-05 08:43:25 +00:00
Mario Rodas
c70f0c6548
Merge pull request #92257 from r-ryantm/auto-update/tebreak 
tebreak: 1.0 -> 1.1
 2020-07-04 12:45:00 -05:00
R. RyanTM
d8956ba50e tebreak: 1.0 -> 1.1 2020-07-04 10:45:49 +00:00
R. RyanTM
6630edb1bd picard-tools: 2.23.0 -> 2.23.1 2020-07-02 18:09:49 -07:00
Markus Kowalewski
c317091b5a
mrbayes: fix license 2020-06-26 11:06:35 +02:00
Markus Kowalewski
83dda57082
emboss: fix license 2020-06-26 11:05:24 +02:00
R. RyanTM
57a49ce3a4 picard-tools: 2.22.9 -> 2.23.0 2020-06-15 00:57:30 +00:00
R. RyanTM
b1049a61f1 star: 2.7.3a -> 2.7.4a 2020-06-09 02:32:13 +00:00
R. RyanTM
170ea57065 picard-tools: 2.22.8 -> 2.22.9 2020-06-06 15:43:25 +00:00
Benjamin Hipple
f04a5af0cc
Merge pull request #82180 from bcdarwin/bppcore 
bppsuite: init at 2.4.1
 2020-05-26 21:07:25 -04:00
Benjamin Hipple
d3082a31cd
Merge pull request #87544 from bcdarwin/vtk-8 
vtk: 7.1.1 -> 8.2.0
 2020-05-26 00:24:28 -04:00
Ben Darwin
45cd7beeb2 bppsuite: init at 2.4.1 2020-05-25 21:13:02 -04:00
R. RyanTM
a60a040236 picard-tools: 2.22.7 -> 2.22.8 2020-05-25 01:25:17 +00:00
Ryan Mulligan
5505be7840
Merge pull request #88568 from r-ryantm/auto-update/last 
last: 1060 -> 1061
 2020-05-23 11:42:47 -07:00
R. RyanTM
25841d95c5 last: 1060 -> 1061 2020-05-22 02:21:55 +00:00
R. RyanTM
3450729658 picard-tools: 2.22.4 -> 2.22.7 2020-05-19 21:56:38 +00:00
Ryan Mulligan
fdf4439acc
Merge pull request #87494 from r-ryantm/auto-update/SPAdes 
SPAdes: 3.14.0 -> 3.14.1
 2020-05-18 08:06:19 -07:00
Ben Darwin
5e716bf469 vtk: 7.1.1 -> 8.2.0 
- also create vtk_7 as several packages don't build with 8.x:
  - itk5: vtkVersion.h header not found at compile time
  - ants: version in tree (2.2.0) is incompatible with 8.2
  - itk4: ants depends on both vtk and itk4, so use vtk_7
  - gdcm: vtk header issue
  - python3Packages.vtk: Python C API compilation error with Python 3.8

- upgrade vtkWithQt4 -> vtkWithQt5
 2020-05-11 17:54:29 -04:00
R. RyanTM
ae4d9cb9a0 stacks: 2.52 -> 2.53 2020-05-10 09:37:29 -07:00
R. RyanTM
85b39960b5 SPAdes: 3.14.0 -> 3.14.1 2020-05-10 13:06:19 +00:00
Dmitry Kalinkin
e80302dc7d
Merge pull request #86142 from bcdarwin/itk-5.1.0 
Itk: 5.0.1 -> 5.1.0
 2020-05-09 15:03:28 -04:00
Mario Rodas
60762e9524
Merge pull request #86216 from bcdarwin/mrtrix-update 
mrtrix: 3.0_RC3_latest -> 3.0.0
 2020-05-07 06:57:44 -05:00
Ben Darwin
6f1430a802 ezminc: switch from itk5 to itk4 branch 
- itk5 branch currently lacks support for itk 5.1
 2020-05-05 00:08:04 -04:00
Mario Rodas
3b6c399fc3
Merge pull request #86720 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.22.2 -> 2.22.4
 2020-05-04 06:01:31 -05:00
R. RyanTM
877b1cdad7 picard-tools: 2.22.2 -> 2.22.4 2020-05-04 04:07:44 +00:00
R. RyanTM
d0afae4298 dcm2niix: 1.0.20190902 -> 1.0.20200331 2020-05-02 10:16:22 +02:00
Ben Darwin
70171d321e mrtrix: 3.0_RC3_latest -> 3.0.0 2020-04-28 10:37:06 -04:00
Lassulus
d0b1de5491
Merge pull request #70401 from bzizou/quast 
Quast: init at 5.0.2
 2020-04-24 20:26:04 +02:00
Bruno Bzeznik
eb51b462aa Quast: init at 5.0.2 2020-04-24 10:11:54 +02:00
Justin Bedo
d8d6ecc418 mosdepth: 0.2.6 -> 0.2.9 2020-04-21 19:42:05 +02:00
Matthew Bauer
1c8aba8334 treewide: use blas and lapack 
This makes packages use lapack and blas, which can wrap different
BLAS/LAPACK implementations.

treewide: cleanup from blas/lapack changes

A few issues in the original treewide:

- can’t assume blas64 is a bool
- unused commented code
 2020-04-17 16:24:09 -05:00