Vladimír Čunát
c480cc2895
Merge branch 'master' into staging-next-2022-04-23
2022-04-30 23:02:28 +02:00
R. Ryantm
a82b1b63c3
blast: 2.12.0 -> 2.13.0
2022-04-29 09:39:10 -05:00
github-actions[bot]
073cad8fd6
Merge master into staging-next
2022-04-25 12:04:02 +00:00
Sandro
2f517412c4
Merge pull request #165477 from rbreslow/dcm2niix-optional-modules
2022-04-25 11:59:49 +02:00
Rocky Breslow
d1c3fea7ec
dcm2niix: support usage of suggested Cloudflare zlib
2022-04-18 15:00:45 -04:00
Rocky Breslow
9019ce0106
dcm2niix: add maintainer
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Also, fix grammatical error in long description.
2022-04-18 15:00:16 -04:00
Ben Siraphob
259fa13d53
treewide: remove nativeBuildInputs that are in stdenv
2022-04-16 21:46:46 +03:00
Fabián Heredia Montiel
8a9d5e296b
cmtk: add -std=c++11 to fix build on gcc11
2022-04-15 11:15:30 -05:00
Malo Bourgon
0e802eafad
treewide: add meta.mainProgram to many packages
2022-04-14 10:24:01 -07:00
Artturi
ebf6f84ea2
Merge pull request #164722 from armeenm/bump-eggnog-mapper
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eggnog-mapper: 1.0.3 -> 2.1.7
2022-04-10 14:37:21 +03:00
Rocky Breslow
09b7444b82
dcm2niix: add support for configuring optional compile-time modules
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Right now, the dcm2niix package produces a single binary without support for
dcm2niibatch, JPEG-LS, OpenJPEG, or an alternative zlib library. The official
build process for dcm2niix configures all these options (minus batch support). I
was motivated to make these changes so my organization could process JPEG 2000
imagery using the Nix binary.
2022-04-04 10:41:27 -04:00
ajs124
60f1e6ffe2
ncbi_tools: remove after being marked broken for over two years
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It was marked in commit b9948fedc6
2022-04-03 16:14:18 +01:00
Ben Siraphob
5187709ff7
Merge pull request #166508 from siraben/automake-buildinputs
2022-03-31 03:15:41 -05:00
Ben Siraphob
21faf9fc29
treewide: move autoconf, automake to nativeBuildInputs
2022-03-30 20:17:24 -05:00
Sandro
1f6bdf4d93
Merge pull request #165458 from rbreslow/add-flywheel-cli
2022-03-29 13:33:54 +02:00
Rocky Breslow
603e9d7b64
flywheel-cli: init at 16.2.0
2022-03-28 15:54:39 -04:00
Felix Buehler
3bc5196252
treewide: rename name to pname&version
2022-03-23 22:55:50 +01:00
Armeen Mahdian
6cfaf0a464
eggnog-mapper: 1.0.3 -> 2.1.7
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https://github.com/eggnogdb/eggnog-mapper/releases
2022-03-18 10:26:47 -05:00
Bruno Bzeznik
7d62054650
angsd: init at 0.937
2022-03-04 09:17:35 -06:00
Matthew Wakefield
e85b65f986
minimap2: enable aarch64 builds ( #161169 )
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Co-authored-by: Bobby Rong <rjl931189261@126.com>
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
2022-03-04 12:27:29 +01:00
Justin Bedo
89eff15f31
last: 1260 -> 1268
2022-03-02 13:35:56 +11:00
Felix Buehler
fe7678ca81
raxml-mpi: remove appendToName to have a consistent package name for repology
2022-02-28 12:46:15 +01:00
Felix Buehler
13dca33cdc
neuron-mpi: remove appendToName to have a consistent package name for repology
2022-02-28 12:46:15 +01:00
R. Ryantm
1e7c64aae1
bcftools: 1.14 -> 1.15
2022-02-25 11:12:05 -08:00
R. Ryantm
ce9d28cc49
picard-tools: 2.26.10 -> 2.26.11
2022-02-24 17:34:18 +00:00
Scriptkiddi
4e60a4823b
febio-studio: init at 1.6.1
2022-02-21 16:43:36 +01:00
R. RyanTM
94f61e4c82
SPAdes: 3.15.3 -> 3.15.4
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(#158938 )
2022-02-18 00:55:34 +01:00
R. Ryantm
240262f564
messer-slim: 3.7 -> 3.7.1
2022-02-14 00:46:29 +00:00
Justin Bedő
2759d6f8d8
Merge pull request #159675 from r-ryantm/auto-update/picard-tools
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picard-tools: 2.26.9 -> 2.26.10
2022-02-13 09:53:20 +11:00
Justin Bedő
7ff9c00c4b
Merge pull request #159562 from r-ryantm/auto-update/mosdepth
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mosdepth: 0.3.2 -> 0.3.3
2022-02-13 09:27:54 +11:00
R. Ryantm
8a4946df2d
picard-tools: 2.26.9 -> 2.26.10
2022-02-12 22:20:29 +00:00
R. Ryantm
8bb7bc766f
mosdepth: 0.3.2 -> 0.3.3
2022-02-12 14:31:47 +00:00
R. Ryantm
6ca5bb6e20
last: 1256 -> 1260
2022-02-12 02:52:18 +00:00
Renaud
2ddcc2b369
hisat2: update homepage
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and use SPDX 3.0 license identifier
2022-02-06 15:10:53 +01:00
R. Ryantm
d44e044d84
kallisto: 0.46.2 -> 0.48.0
2022-01-31 09:53:54 -08:00
Bruno Bzeznik
b6fa4975cf
repseek: init at 9Sep2014 ( #148017 )
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Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
2022-01-31 14:59:32 +01:00
markuskowa
01f1b41a7d
Merge pull request #156381 from r-ryantm/auto-update/bowtie2
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bowtie2: 2.4.4 -> 2.4.5
2022-01-29 14:56:23 +01:00
R. RyanTM
8bd7d6d6e0
star: 2.7.9a -> 2.7.10a
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(#155868 )
2022-01-24 19:51:44 +01:00
R. Ryantm
ebb9e86bf9
bowtie2: 2.4.4 -> 2.4.5
2022-01-23 22:45:59 +00:00
Mario Rodas
111d7dc831
Merge pull request #156014 from r-ryantm/auto-update/deeptools
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deeptools: 3.5.0 -> 3.5.1
2022-01-22 23:45:09 -05:00
Justin Bedő
c24af4642c
sambamba: 0.8.1 -> 0.8.2 ( #155972 )
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Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
2022-01-23 04:51:46 +01:00
R. Ryantm
227011af59
deeptools: 3.5.0 -> 3.5.1
2022-01-21 05:36:24 +00:00
Frederik Rietdijk
afef6d0e81
Merge pull request #154687 from dotlambda/python-alias
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python,pythonPackages: make aliases
2022-01-17 09:37:49 +01:00
R. RyanTM
4fa7c297f2
minimap2: 2.23 -> 2.24
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* minimap2: 2.23 -> 2.24 (#153189 )
* minimap2: no support for aarch64
Co-authored-by: Renaud <c0bw3b@users.noreply.github.com>
2022-01-17 08:49:35 +01:00
Robert Schütz
d5cceedbd1
python,pythonPackages: make aliases
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Since aliases are disallowed in nixpkgs, this makes usage of Python 2
which is EOL more explicit.
2022-01-16 18:39:59 +00:00
Robert Schütz
65e959eb9a
tebreak: also use python3 for tests
2022-01-16 18:00:59 +00:00
Martin Weinelt
492e5e07c9
lumpy: drop
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Removed because it requires python2 and the upstream repository looks
undermaintained.
2022-01-16 02:36:23 +01:00
markuskowa
09819d7eff
Merge pull request #152801 from r-ryantm/auto-update/messer-slim
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messer-slim: 3.6 -> 3.7
2022-01-03 10:50:18 +01:00
R. RyanTM
e4992cdd65
stacks: 2.59 -> 2.60
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(#149101 )
2022-01-02 19:23:58 +01:00
Martin Weinelt
4beaf5301d
python3Packages.xenomapper: move to top-level
2022-01-01 02:09:11 +01:00
