212 commits

Author	SHA1	Message	Date
Chris Cheshire	d9818cf3ab	seacr | updated whitespace	2021-01-05 10:21:32 +00:00
Chris Cheshire	6d34e6964f	seacr | added new line at end	2021-01-05 10:20:13 +00:00
Chris Cheshire	e25edbf7b8	seacr | Added meta file	2021-01-05 10:18:11 +00:00
Chris Cheshire	c110088b5e	Updated line endings	2021-01-05 09:56:15 +00:00
Chris Cheshire	37840b3855	seacr | updated trailing whitespace	2021-01-05 09:54:44 +00:00
Chris Cheshire	9c00d1722c	seacr | PR review changes	2021-01-05 09:50:47 +00:00
Chris Cheshire	7e9cbfc8d1	Merge remote-tracking branch 'nf-core/master'	2021-01-05 09:10:11 +00:00
Harshil Patel	c98f9284a2	Merge pull request #89 from KevinMenden/master ... Add bowtie module	2020-12-18 14:56:29 +00:00
kevinmenden	32f6191ff3	editorconfig	2020-12-18 11:11:19 +01:00
kevinmenden	db0b631906	removed index from test output	2020-12-18 11:06:02 +01:00
kevinmenden	299a3fa07e	adding .index back	2020-12-18 10:58:37 +01:00
kevinmenden	0be13edc52	next try at editorconfig	2020-12-18 09:52:38 +01:00
kevinmenden	07f0a2476a	fixed linting errors	2020-12-18 09:50:05 +01:00
kevinmenden	0eb20c14bf	fixed unaligned output	2020-12-18 09:20:35 +01:00
kevinmenden	1c89c9717b	Merge branch 'master' of https://github.com/KevinMenden/modules	2020-12-18 09:16:17 +01:00
kevinmenden	f840325ead	added unaligned output	2020-12-18 09:14:40 +01:00
Kevin Menden	7805d25cc5	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:48 +01:00
Kevin Menden	a7f1ff29d7	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:42 +01:00
Kevin Menden	dc4108fd9b	Update software/bowtie/align/meta.yml ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 09:13:35 +01:00
Kevin Menden	41329b8982	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-18 08:16:18 +01:00
Edmund Miller	d76638d6f8	style(#77): Fix editorconfig errors	2020-12-17 17:50:24 -06:00
Chris Cheshire	6f1c66f22f	Merge remote-tracking branch 'nf-core/master'	2020-12-17 14:29:20 +00:00
Chris Cheshire	b24834dfce	seacr | local testing implimented	2020-12-17 14:20:24 +00:00
Chris Cheshire	74e7b5385f	seacr | Added main process structure	2020-12-17 13:54:48 +00:00
Harshil Patel	b236d0c834	Update main.nf	2020-12-17 10:24:01 +00:00
kevinmenden	57ab6dbcbf	groovy formatting	2020-12-17 10:24:48 +01:00
kevinmenden	d75cb75111	added singularity; edge NXF version	2020-12-17 07:33:44 +01:00
Chris Cheshire	3ff2b558e0	seacr | Added callpeak skeleton	2020-12-16 11:05:06 +00:00
kevinmenden	f35850bf14	bowtie bam output	2020-12-16 11:02:58 +01:00
drpatelh	200c946693	Add --singularity_pull_docker_container to module yml	2020-12-14 00:34:24 +00:00
drpatelh	99a2364a26	Update all other modules	2020-12-14 00:05:48 +00:00
drpatelh	047dbde0af	Add singularity containers for rnaseq pipeline modules	2020-12-13 23:41:53 +00:00
drpatelh	115efec15c	Update Salmon quant to use BAM input	2020-12-09 21:20:52 +00:00
drpatelh	37b8b82c98	Fix tyop	2020-12-09 21:20:26 +00:00
drpatelh	42f318fe75	Update Salmon modules	2020-12-09 21:20:11 +00:00
kevinmenden	42020ce5ac	added tests for bowtie paired-end alignment; resolved index bug	2020-12-09 16:39:05 +01:00
kevinmenden	cc72028d3d	output index as directory	2020-12-09 15:58:56 +01:00
Kevin Menden	560a6a578b	Apply suggestions from code review ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-09 15:45:05 +01:00
Harshil Patel	79a0ce79ab	Merge pull request #82 from abhi18av/master ... Add multiqc module	2020-12-09 11:31:07 +00:00
Abhinav Sharma	0c9f29e0a2	Give finishing touches after the review	2020-12-08 19:08:00 +05:30
Abhinav Sharma	b56a0322ab	Apply suggestions from code review by @drpatelh ... Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>	2020-12-08 18:57:14 +05:30
kevinmenden	9d67da2b2c	added module yml files	2020-12-08 13:40:32 +01:00
kevinmenden	508761e05c	Added bowtie index and align modules	2020-12-08 12:57:00 +01:00
Harshil Patel	cd2cf9cf2f	Merge pull request #85 from nf-core/pytest-workflow-refactor ... Refactor all tests to use pytest-workflow	2020-12-04 14:30:00 +00:00
Abhinav Sharma	3da7aec183	Update the signatures	2020-12-04 12:25:16 +05:30
Abhinav Sharma	a30df8a59b	Iterate again on MultiQC	2020-12-04 12:11:17 +05:30
Abhinav Sharma	5fd3ba3ce6	Update the tests for MultiQC	2020-12-02 13:09:32 +05:30
Abhinav Sharma	4e657c82e2	Move the MultiQC test files to data folder	2020-12-01 12:27:31 +05:30
Abhinav Sharma	b43c1f3937	Refactor the multiqc test code	2020-12-01 12:19:52 +05:30
Abhinav Sharma	131609dc05	Tweak the output section to make the tests pass	2020-12-01 12:03:37 +05:30