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Author SHA1 Message Date
Mahesh Binzer-Panchal
d7c1fe1477
Update tests/modules/kat/hist/test.yml 
Co-authored-by: Sateesh Peri <105730406+sateeshblue@users.noreply.github.com>
 2022-05-23 08:51:49 +02:00
Mahesh Binzer-Panchal
b40b147004
Update tests/modules/kat/hist/test.yml 
Co-authored-by: Sateesh Peri <105730406+sateeshblue@users.noreply.github.com>
 2022-05-23 08:51:29 +02:00
Mahesh Binzer-Panchal
308ab8801d
Merge branch 'master' into kat_hist 2022-05-12 16:52:05 +02:00
Harshil Patel
be0f022053
Merge pull request #1648 from nf-core/refactor-sra-fastq 
refactor: rename and update subworkflow
 2022-05-12 11:26:15 +01:00
Moritz E. Beber
74b11ccc44 refactor: rename and update subworkflow 2022-05-11 19:24:16 +02:00
Matthias De Smet
1dccf12077
Merge pull request #1645 from matthdsm/update/bowtie2-align 
bowtie2: remove code duplication
 2022-05-11 19:12:23 +02:00
Matthias De Smet
dcf9c07fc9
Merge branch 'master' into update/bowtie2-align 2022-05-11 19:08:23 +02:00
Harshil Patel
4aaff98c49
Merge pull request #1630 from nf-core/add-ncbi-settings 
feat: add module that verifies NCBI settings
 2022-05-11 17:51:24 +01:00
Moritz E. Beber
98d8a741ec tests: add missing paths to config 2022-05-11 18:17:27 +02:00
Moritz E. Beber
888620063b tests: delete settings for conda 2022-05-11 17:44:49 +02:00
Moritz E. Beber
b2dbaa9930 refactor: rename module 2022-05-11 17:33:45 +02:00
Moritz E. Beber
23091aabda refactor: move files to custom section 2022-05-11 17:33:45 +02:00
Moritz E. Beber
a83dd33a7e tests: use remove settings file 2022-05-11 17:33:45 +02:00
Moritz E. Beber
e4551a9ab3 refactor: always output settings 2022-05-11 17:33:45 +02:00
Moritz E. Beber
64ff23f3c1 feat: add module that verifies NCBI settings 2022-05-11 17:33:45 +02:00
Mahesh Binzer-Panchal
0199d0efd2
Merge branch 'master' into kat_hist 2022-05-11 16:56:29 +02:00
Harshil Patel
4e603393c3
Merge branch 'master' into update/bowtie2-align 2022-05-11 15:47:37 +01:00
Matthias De Smet
c8d3de2ad9
restore samtools cmd to defaults 2022-05-11 16:17:30 +02:00
Mahesh Binzer-Panchal
64dad04b9b
Merge pull request #1646 from mahesh-panchal/fix_test_config 
Fix path
 2022-05-11 15:58:55 +02:00
Mahesh Binzer-Panchal
fbe2f85e7b Fix path 2022-05-11 13:53:38 +00:00
Matthias De Smet
bcd7fe55b1
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:59:03 +02:00
Matthias De Smet
9097abf277
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:58:58 +02:00
Matthias De Smet
971a889e2a
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:57:27 +02:00
Matthias De Smet
b456d8fa0a
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:57:19 +02:00
Matthias De Smet
ff4b297827
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:57:11 +02:00
Matthias De Smet
94e8c3a882
Update tests/modules/bowtie2/align/test.yml 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:56:03 +02:00
Matthias De Smet
9dd083fa94
Update modules/bowtie2/align/main.nf 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:55:55 +02:00
Matthias De Smet
0d00452eca
Update tests/modules/bowtie2/align/test.yml 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2022-05-11 13:55:45 +02:00
Matthias De Smet
dcffd93875
Merge branch 'master' into update/bowtie2-align 2022-05-11 13:34:24 +02:00
CMGG ICT Team
3ae8cbfad7 bowtie2: remove code duplication 2022-05-11 13:32:56 +02:00
Harshil Patel
9602b989eb
Merge pull request #1632 from nf-core/refactor-fasterq-dump 
Refactor fasterq dump
 2022-05-11 12:14:22 +01:00
Moritz E. Beber
0cdf7767a7 refactor: require NCBI user settings always 2022-05-11 13:02:52 +02:00
Moritz E. Beber
eae7161a32 tests: add settings input or not and test all branches 2022-05-11 12:47:54 +02:00
Moritz E. Beber
d4f13ebfff refactor: create new settings input 2022-05-11 12:47:54 +02:00
Moritz E. Beber
5d593bdb45 docs: correct license and input description 2022-05-11 12:47:54 +02:00
Mahesh Binzer-Panchal
fd579ebbb3
Merge branch 'master' into kat_hist 2022-05-11 12:43:11 +02:00
Harshil Patel
79bf60fa11
Merge pull request #1631 from nf-core/refactor-prefetch 
Refactor prefetch
 2022-05-11 11:29:02 +01:00
Harshil Patel
7be7f404d5
Merge branch 'master' into refactor-prefetch 2022-05-11 11:28:02 +01:00
Mahesh Binzer-Panchal
7a16ece747 Change md5sum to contains 2022-05-10 15:13:25 +00:00
Mahesh Binzer-Panchal
cd32c7f744
Merge branch 'master' into kat_hist 2022-05-10 17:03:00 +02:00
Mahesh Binzer-Panchal
9b4923dcd5 Change test files 2022-05-10 15:02:37 +00:00
Praveen Raj S
ae55653c3c
Merge pull request #1638 from rannick/master 
Update arriba
 2022-05-10 14:39:29 +02:00
Mahesh Binzer-Panchal
b875cfb744
Merge branch 'master' into kat_hist 2022-05-10 14:36:18 +02:00
Praveen Raj S
237971cd15
Merge branch 'master' into master 2022-05-10 14:35:41 +02:00
nvnieuwk
914e56163a
Merge pull request #1624 from nvnieuwk/new-module-rtg/vcfeval 
New module rtg/vcfeval
 2022-05-10 13:41:20 +02:00
Nicolas Vannieuwkerke
c9cd7be8df Merge branch 'new-module-rtg/vcfeval' of github.com:nvnieuwk/modules into new-module-rtg/vcfeval 2022-05-10 13:33:40 +02:00
Nicolas Vannieuwkerke
fa7c947c35 Adjusted meta 2022-05-10 13:33:37 +02:00
nvnieuwk
d3927aae99
Update modules/rtgtools/vcfeval/main.nf 
Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
 2022-05-10 13:26:14 +02:00
nvnieuwk
7fc4cc5a38
Update modules/rtgtools/vcfeval/main.nf 
Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
 2022-05-10 13:23:22 +02:00
Nicolas Vannieuwkerke
b7134855e4 Small update on the output channels 2022-05-10 12:34:52 +02:00