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3125 commits 30 branches 0 tags 142 MiB
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1640 commits

Author SHA1 Message Date
WackerO
c3b6ec8f3b Merge branch 'master' of https://github.com/nf-core/modules into mpileup_bgzip 2022-06-13 08:31:01 +02:00
WackerO
dc6c09e083 samtools mpileup now bgzips mpileup files 2022-06-11 13:32:53 +02:00
Taniguti
547f483b74
Merge branch 'master' into haplocheck 2022-06-10 20:39:33 -03:00
Jasmin F
7027719c67
Merge branch 'master' into r-ampir 2022-06-10 14:57:24 +02:00
Mahesh Binzer-Panchal
f8bd7902d9 Update Git SHA messagre 2022-06-10 11:01:40 +00:00
Mahesh Binzer-Panchal
25c742dc69 Commit suggestions from code review 2022-06-10 10:56:56 +00:00
jasmezz
088b5b14f6 Merge branch 'r-ampir' of github.com:jasmezz/modules into r-ampir 2022-06-10 12:54:47 +02:00
jasmezz
39388abc04 Add file name collision check + TSV output 2022-06-10 12:54:39 +02:00
Mahesh Binzer-Panchal
6a1cbce0f5
Update tests/test_versions_yml.py 
Co-authored-by: Fabian Egli <fabianegli@users.noreply.github.com>
 2022-06-10 12:54:08 +02:00
Mahesh Binzer-Panchal
e75dd10667
Merge branch 'master' into allow_git_sha_versions 2022-06-10 12:53:50 +02:00
Alexander Peltzer
a0747b1405 Remove empty file md5sum 2022-06-10 11:53:28 +02:00
Alexander Peltzer
63f47551a8 Fix empty test having md5sum 2022-06-10 11:52:30 +02:00
Alexander Peltzer
1fbe69cfcc Updated and fixed tests 2022-06-10 11:46:23 +02:00
Mahesh Binzer-Panchal
0479544e02 Allow Git commit SHA's as version numbers 2022-06-10 09:46:14 +00:00
Alexander Peltzer
8dfe8b795f Merge remote-tracking branch 'refs/remotes/origin/cellranger-7.0.0' into cellranger-7.0.0 2022-06-10 11:23:15 +02:00
Alexander Peltzer
4928dfad34 Trying to fix tests 2022-06-10 11:22:45 +02:00
Alexander Peltzer
570a43ba4c Fix tests 2022-06-10 11:21:03 +02:00
Thiseas C. Lamnidis
9948e9fe21
Merge branch 'master' into sexdeterrmine 2022-06-10 11:03:18 +02:00
James A. Fellows Yates
c9db677a45
Merge branch 'master' into r-ampir 2022-06-09 19:28:37 +02:00
jasmezz
5841f11edb Replace MD5 with contains check 2022-06-09 18:15:27 +02:00
jasmezz
ecf1d146ab Add full user options for AMPir 2022-06-09 16:59:00 +02:00
Maxime U. Garcia
878a5a8093
Merge branch 'master' into update_spark 2022-06-09 15:49:31 +02:00
Rike
30262d1fdd remove variable checksum 2022-06-09 15:44:12 +02:00
Rike
a5583143c4 update checksum 2022-06-09 15:38:28 +02:00
jasmezz
ba53e09b64 Implement suggestions from code review 2022-06-09 15:37:35 +02:00
Rike
95633c6853 update checksum 2022-06-09 15:30:47 +02:00
Nicolas Vannieuwkerke
c50df9ad04 fix test.yml 2022-06-09 15:14:37 +02:00
Nicolas Vannieuwkerke
81fff7384d small fix and typo 2022-06-09 15:08:02 +02:00
Nicolas Vannieuwkerke
14d38e43cf fix test.yml 2022-06-09 14:58:20 +02:00
nvnieuwk
bf73b6d376
Merge branch 'master' into new-module-gatk4/reblockgvcf 2022-06-09 14:57:20 +02:00
Nicolas Vannieuwkerke
fe9e4ece00 new module gatk4/reblockgvcf 2022-06-09 14:56:55 +02:00
nvnieuwk
6d10909e9f
Update tests/modules/ensemblvep/main.nf 
Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>
 2022-06-09 11:55:41 +02:00
nvnieuwk
e88a4ff70b
Merge branch 'master' into add-optional-fasta-parameter-to-ensemblvep 2022-06-09 11:54:22 +02:00
Nicolas Vannieuwkerke
e60323b757 typo 2022-06-09 11:53:59 +02:00
Nicolas Vannieuwkerke
7947bc662c added an extra test without fasta 2022-06-09 11:53:16 +02:00
Nicolas Vannieuwkerke
a3202e41ec prettier 2022-06-09 11:47:24 +02:00
Nicolas Vannieuwkerke
5ccf6fbcc9 add optional fasta argument to ensemblvep 2022-06-09 11:45:27 +02:00
SusiJo
0204d2374b Merge remote-tracking branch 'origin/master' into gatk_spark 2022-06-09 09:33:17 +02:00
James Fellows Yates
4d7afa21e2 Add GATK indelrealigner tests 2022-06-08 21:14:08 +02:00
James A. Fellows Yates
1fc0d3de4b
Merge branch 'gatk3-indelrealigner' into upstream-for-indel 2022-06-08 20:30:19 +02:00
James A. Fellows Yates
4a2157e5ab
Merge branch 'master' into gatk-realigntargetcreator 2022-06-08 20:15:02 +02:00
Taniguti
89bffe3a5e
Merge branch 'master' into haplocheck 2022-06-08 15:00:06 -03:00
Ramprasad Neethiraj
1d67489056 update test 2022-06-08 16:36:02 +02:00
Ramprasad Neethiraj
0b090a6b6d Merge branch 'master' of https://github.com/nf-core/modules into rhocall 2022-06-08 16:34:34 +02:00
Taniguti
d037f0ec97
Merge branch 'master' into haplocheck 2022-06-08 10:47:38 -03:00
Ramprasad Neethiraj
3cabdfac20
Merge branch 'master' into update_roh 2022-06-08 15:04:34 +02:00
Ramprasad Neethiraj
c079ee2025 fix test 2022-06-08 14:48:16 +02:00
Matthias De Smet
c005a5e007 formatting 2022-06-08 14:42:58 +02:00
Matthias De Smet
100b3f244c
Apply suggestions from code review 
Co-authored-by: Mahesh Binzer-Panchal <mahesh.binzer-panchal@nbis.se>
 2022-06-08 14:24:55 +02:00
Lucas Taniguti
b2afb3b2ee fix: string interpolation and test input access 2022-06-08 09:08:59 -03:00