Commit graph

14 commits

Author SHA1 Message Date
Harshil Patel
dce27b8102
Update functions.nf to be more flexible for publishing by meta keys (#423)
* Update functions.nf

* Replace saveAs line in module main script

* Add spacing for ECLint
2021-04-09 17:23:56 +01:00
Jose Espinosa-Carrasco
572abb00b3
Remove def from module options definition in main (#270)
* Remove def from module options definition in main

* Fix bismark_deduplicate tests

* Fix bwameth_align tests

* Fixing gatk4 conda tests ("=" instead of ':' in build id)

* Same as previous commit (Fix gatk4 test)

* Fix qualimap bamqc test (no md5 check for pngs)

* Fix seqkit split2 tests. Changed to new test data

* Fix samtools tests. Some were missing initOptions include

* Removing TOOL SUBTOOL template module since now it is included on tools repo
2021-03-15 12:16:43 +00:00
drpatelh
dcc580e4fb Remove Conda build ids for all modules 2021-02-16 23:58:23 +00:00
drpatelh
4564ef0e54 Fix bedtools genomecov module 2021-02-07 21:31:21 +00:00
sruthipsuresh
e360617ac6 Fixed images, genomecov 2021-01-29 23:17:44 -06:00
sruthipsuresh
fc8cdde2b4 Apply suggestions from code review
Add all initial suggestions from review (syntax issues)

Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-01-29 23:17:44 -06:00
sruthipsuresh
672f94f2af rebased and updated all bedtools testing and modules 2021-01-29 23:17:44 -06:00
Sruthi Suresh
a984c1be7c Added all modules with basic functionality and updated meta.yml files. 2021-01-29 23:17:44 -06:00
drpatelh
c08e6959a5 Reorganise everything 2020-08-05 16:09:25 +01:00
JoseEspinosa
759dd85c92 Removing biocontainer in favor of nf-core container 2020-07-16 10:22:09 +02:00
JoseEspinosa
0b123f9e13 Bedtools genomecov adapted to the current module standard 2020-07-15 18:15:32 +02:00
JoseEspinosa
c059a485b9 Using bedtools{_,-}genomecov instead of genomecov alone 2020-07-14 17:31:40 +02:00
JoseEspinosa
5f80a900e9 Changing fasta_sizes by chrom_sizes input path for genomecov 2020-07-14 16:47:27 +02:00
JoseEspinosa
f2eb3f68c0 Module bedtools-genomecov added 2020-07-14 16:47:26 +02:00