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366205 commits 5 branches 0 tags 31 GiB
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717 commits

Author SHA1 Message Date
ajs124 60f1e6ffe2 ncbi_tools: remove after being marked broken for over two years 
It was marked in commit b9948fedc6 by Robin Gloster on 2017-03-30 (commited on 2017-03-30)
 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
Bruno Bzeznik 7d62054650 angsd: init at 0.937 2022-03-04 09:17:35 -06:00
Matthew Wakefield e85b65f986
minimap2: enable aarch64 builds (#161169) 
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 
(#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 
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 
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 
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) 
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 
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 
(#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 
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) 
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 
python,pythonPackages: make aliases
 2022-01-17 09:37:49 +01:00
R. RyanTM 4fa7c297f2
minimap2: 2.23 -> 2.24 
* 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 
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 
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 
messer-slim: 3.6 -> 3.7
 2022-01-03 10:50:18 +01:00
R. RyanTM e4992cdd65
stacks: 2.59 -> 2.60 
(#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
R. Ryantm 37d2f5cbb4 messer-slim: 3.6 -> 3.7 2021-12-30 20:32:56 +00:00
Bobby Rong 4fdcad0d6b
Merge pull request #149379 from r-ryantm/auto-update/minimap2 
minimap2: 2.22 -> 2.23
 2021-12-27 18:05:04 +08:00
Felix Buehler e578d45c10 diamond: switch to fetchFromGitHub 2021-12-23 19:11:17 +01:00
Felix Buehler 865eee2b26 kssd: switch to fetchFromGitHub 2021-12-23 19:11:17 +01:00
Felix Buehler 2f4a86e7d7 messer-slim: switch to fetchFromGitHub 2021-12-23 19:11:17 +01:00
Felix Buehler e1bd890fb0 niftyseg: switch to fetchFromGitHub 2021-12-23 19:11:17 +01:00
Justin Bedo fa6244b712
picard-tools: 2.26.6 -> 2.26.9 2021-12-22 22:20:36 +11:00
Justin Bedő f6e14b6ada
Merge pull request #150628 from jbedo/subread 
subread: init 2.0.3
 2021-12-15 13:46:45 +11:00
Justin Bedo 6a1f4a51eb
subread: init 2.0.3 2021-12-14 13:30:23 +11:00
R. Ryantm d4a5bdc264 seaview: 5.0.4 -> 5.0.5 2021-12-12 15:59:16 +00:00
R. Ryantm d337b164d6 minimap2: 2.22 -> 2.23 2021-12-07 15:04:36 +00:00
Justin Bedő 711ef56370
Merge pull request #148514 from jbedo/picard 
picard-tools: 2.26.4 -> 2.26.6
 2021-12-05 06:56:25 +11:00