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Author SHA1 Message Date
Edmund Miller
4c30f2943e
docs: Use one tag in all of the examples 
Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
 2021-02-08 20:13:11 -06:00
Harshil Patel
46e5df2cf7
Merge pull request #151 from drpatelh/bedtools 
Follow up fixes for bedtools modules added in #79
 2021-02-09 01:54:31 +00:00
Edmund Miller
9637a8189a
docs: Update README with minor edits 2021-02-08 19:46:42 -06:00
Harshil Patel
84cf5ea2ef
Merge pull request #153 from JoseEspinosa/bedtools_maskfasta 
Add bedtools maskfasta module
 2021-02-08 23:11:00 +00:00
Harshil Patel
132dabbbb6
Update tests/data/bed/C.bed 2021-02-08 23:03:26 +00:00
JoseEspinosa
1b3e5e0283 Fixing module name in test.yml 2021-02-08 23:45:01 +01:00
JoseEspinosa
02d10c25a3 Add bedtools maskfasta module 2021-02-08 23:41:10 +01:00
drpatelh
0b9e32e32d Remove complement suffix from tests 2021-02-08 22:25:13 +00:00
Harshil Patel
85926b20d4
Merge pull request #134 from JoseEspinosa/bcftools_viralrecon 
Bcftools viralrecon
 2021-02-08 21:52:57 +00:00
Harshil Patel
13c1e908a3
Update .github/filters.yml 2021-02-08 21:48:21 +00:00
Harshil Patel
0f6830f7cc
Update tests/software/bcftools/consensus/main.nf 2021-02-08 21:41:24 +00:00
JoseEspinosa
58d28ed896 Fix copy/paste error :P 2021-02-08 21:57:31 +01:00
JoseEspinosa
f8882de456 Renaming test ymls just to: software tool 2021-02-08 21:56:53 +01:00
JoseEspinosa
7a0ba85843 Adding again bcftools modules to filters after solving conflict 2021-02-08 18:10:50 +01:00
JoseEspinosa
f4e322f88d Merging upstream changes 
# Conflicts:
#	.github/filters.yml
 2021-02-08 18:09:41 +01:00
JoseEspinosa
4fa38ebb7a Separate test data to break dependencies between bcftools modules tests 2021-02-08 16:51:21 +01:00
JoseEspinosa
83cc25860d Rearranging tests to test each module separately 2021-02-08 15:16:51 +01:00
JoseEspinosa
fe412797dd Adressing general comments on PR #134 2021-02-08 15:11:36 +01:00
drpatelh
d9443043ab Add white background logo for repo 2021-02-08 11:22:03 +00:00
Harshil Patel
d29ef5c52c
Merge pull request #152 from drpatelh/docs 
Update template module and add more docs for testing and finding containers
 2021-02-08 10:31:00 +00:00
JoseEspinosa
5071bf5914 Merge remote-tracking branch 'upstream/master' into bcftools_viralrecon 2021-02-08 10:45:57 +01:00
drpatelh
c9cfdd31f3 Fix barfing linters 2021-02-08 00:57:06 +00:00
drpatelh
c92fe8701a Add docs about docs 2021-02-08 00:53:32 +00:00
drpatelh
41dfaf2a19 Use Nextflow comments 2021-02-08 00:44:45 +00:00
drpatelh
56752b90f5 Fix indents 2021-02-08 00:40:36 +00:00
drpatelh
a8efd112b9 Add docs about finding and adding containers 2021-02-08 00:35:50 +00:00
drpatelh
d4b278eb65 Update docs 2021-02-08 00:01:48 +00:00
drpatelh
9cb958ca25 Update commands for pytest 2021-02-07 23:50:21 +00:00
drpatelh
07f62a76c5 Re-word CI tests 2021-02-07 23:40:26 +00:00
drpatelh
6bbb71a022 Update link to tests template 2021-02-07 23:26:54 +00:00
drpatelh
eeb496cf5c Fix filters 2021-02-07 23:23:08 +00:00
drpatelh
83a50d8ae0 Rename SOFTWARE_TOOL to TOOL_SUBTOOL 2021-02-07 23:20:53 +00:00
Harshil Patel
dcabde6b85
Merge pull request #139 from nf-core/testing-docs 
Add documentation for Testing
 2021-02-07 22:35:01 +00:00
drpatelh
a34d74188d Really fix Editor Config 2021-02-07 21:49:20 +00:00
drpatelh
ef0a984cc0 Fix Editor config tests 2021-02-07 21:44:45 +00:00
drpatelh
418bd64e80 Test module with Conda 2021-02-07 21:33:42 +00:00
drpatelh
5779b180da Fix bedtools sort module 2021-02-07 21:32:43 +00:00
drpatelh
f3b5af4ed5 Fix bedtools slip module 2021-02-07 21:32:20 +00:00
drpatelh
38964ecfc0 Fix bedtools intersect module 2021-02-07 21:32:01 +00:00
drpatelh
a37b116186 Fix bedtools merge module 2021-02-07 21:31:39 +00:00
drpatelh
4564ef0e54 Fix bedtools genomecov module 2021-02-07 21:31:21 +00:00
drpatelh
a0c08e0c06 Fix bedtools complement module 2021-02-07 21:31:02 +00:00
drpatelh
a9102c329c Fix bedtools complement module 2021-02-07 20:55:12 +00:00
Harshil Patel
e4adb8ab53
Merge pull request #79 from Functional-Genomics-Lab/bedtools-general 
Bring bedtools up to speed
 2021-02-07 20:49:17 +00:00
Harshil Patel
0393d39105
Update tests/software/bedtools/complement/main.nf 2021-02-07 20:35:51 +00:00
Harshil Patel
5269c1ec60
Update tests/software/bedtools/intersect/main.nf 2021-02-07 20:35:12 +00:00
Harshil Patel
8841af1267
Update tests/software/bedtools/merge/main.nf 2021-02-07 20:34:30 +00:00
Harshil Patel
b068f2fc53
Update tests/software/bedtools/sort/main.nf 2021-02-07 20:33:02 +00:00
Harshil Patel
b260192942
Merge pull request #149 from heuermh/minimap2 
Add minimap2 align module
 2021-02-07 16:37:26 +00:00
Michael L Heuer
35ed09b06e Fix CI test failure 2021-02-05 11:41:36 -06:00