167 commits

Author	SHA1	Message	Date
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
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
sruthipsuresh	7a1c2a2eb5	Fixed slop module	2021-01-29 23:17:44 -06:00
sruthipsuresh	93e414635b	Fixed md5sum, fixed filters, fixed slop input	2021-01-29 23:17:44 -06:00
sruthipsuresh	78ac4435be	Added new tests, todo: fix md5sums	2021-01-29 23:17:44 -06:00
Edmund Miller	2b0d51ca9c	test(bedtools): Remove old style tests ... AKA how the tests were done last week.	2021-01-29 23:17:44 -06:00
Edmund Miller	7d52907d1c	test(bedtools): Fix typo on yaml indentation	2021-01-29 23:17:44 -06:00
sruthipsuresh	ac7f634675	Added complement test	2021-01-29 23:17:44 -06:00
sruthipsuresh	e360617ac6	Fixed images, genomecov	2021-01-29 23:17:44 -06:00
sruthipsuresh	e3bbbb48fc	Fixed slop file	2021-01-29 23:17:44 -06:00
sruthipsuresh	29639c522f	Corrected sort	2021-01-29 23:17:44 -06:00
sruthipsuresh	a108bd407e	Corrected md5sum and output	2021-01-29 23:17:44 -06:00
sruthipsuresh	2f19b4279c	All modules corrected, TODO config	2021-01-29 23:17:44 -06:00
sruthipsuresh	32564137fd	Corrected workflows and ran editor config	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
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	6b873d7d33	Remove single_end if/else	2021-02-05 11:35:11 -06:00
Kevin Menden	17dd0415f2	Merge pull request #146 from heuermh/bandage ... Add bandage image module	2021-02-05 08:00:44 +01:00
Michael L Heuer	50bebac136	Remove pairwise test	2021-02-04 15:22:12 -06:00
Michael L Heuer	061b13bf25	Fix md5 --> md5sum	2021-02-04 13:48:56 -06:00
Michael L Heuer	d5f2f5e32d	Add minimap2 align module	2021-02-04 13:42:08 -06:00
Michael L Heuer	37a9f6f456	Address review comments	2021-02-04 12:10:54 -06:00
Harshil Patel	5aa920eb53	Update tests/software/bowtie/align/test.yml	2021-02-04 10:19:28 +00:00
Harshil Patel	68f9a0b711	Update tests/software/bowtie/build/test.yml	2021-02-04 10:08:01 +00:00
Harshil Patel	eb45368a35	Update tests/software/bowtie2/build/test.yml	2021-02-04 10:07:44 +00:00
Edmund Miller	431c699727	Revert "ci: Test bowtie-build instead of _" ... This reverts commit 9b454416d2.	2021-02-03 20:06:05 -06:00
Michael L Heuer	c466255f6f	Add bandage image module	2021-02-03 19:31:58 -06:00
Edmund Miller	9b454416d2	ci: Test bowtie-build instead of _	2021-02-03 13:17:14 -06:00
Edmund Miller	7dbac4bdef	ci: Test adding another work to test name	2021-02-03 13:17:14 -06:00
Edmund Miller	b058da5856	ci: Test buil to see if build is special	2021-02-03 12:43:18 -06:00
Edmund Miller	4d58a037f6	test(bowtie_align): Fix md5sum	2021-02-03 12:37:19 -06:00
Edmund Miller	6901c7e830	ci: Fix bowtie_build names with ""	2021-02-03 12:37:14 -06:00
drpatelh	e71b3eaaa5	Rename workflows	2021-02-03 17:48:17 +00:00
drpatelh	ff6f0642d2	Fix multiqc tests	2021-02-03 17:43:14 +00:00
drpatelh	0683efc679	Fix salmon quant tests	2021-02-03 17:36:06 +00:00
drpatelh	550494cbd1	Fix picard mergesamfiles test	2021-02-03 17:31:41 +00:00
drpatelh	f079ce9d1f	Fix preseq tests	2021-02-03 17:28:44 +00:00
drpatelh	f37fb66f40	Fix bwa mem tests	2021-02-03 17:26:43 +00:00
drpatelh	8a15852756	Fix salmon index tests	2021-02-03 17:13:47 +00:00
drpatelh	058d7b397c	Fix fastqc test	2021-02-03 17:03:30 +00:00
drpatelh	39b8600dbb	Fix trimgalore test	2021-02-03 17:02:52 +00:00
drpatelh	305d47fc87	Change path to tests	2021-02-03 16:44:56 +00:00
drpatelh	a87d584c48	Change path to bowtie tests	2021-02-03 16:39:00 +00:00
drpatelh	9b153f296d	Add check to see if bowtie bam files exists	2021-02-03 16:26:10 +00:00