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Author	SHA1	Message	Date
Michael L Heuer	bbc8c725a2	Fix lint errors	2021-02-04 13:45:39 -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
Kevin Menden	089af956fb	Merge pull request #148 from nf-core/fix-artifact-path ... ci: Fix artifact path	2021-02-04 15:48:52 +01:00
Edmund Miller	05c09429a3	ci: Fix artifact path ... Had to change it for singularity	2021-02-04 08:45:34 -06:00
Harshil Patel	08d8443510	Merge pull request #143 from nf-core/ci-fixes ... Get Singularity CI tests working	2021-02-04 11:28:49 +00:00
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
Kevin Menden	f298c594fe	Update meta.yml ... Just a small edit, we want to keep this consistent for linting	2021-02-04 07:34:08 +01:00
Edmund Miller	d48e865401	ci: Use bowtie filter ... This will cause a bit of duplication, but it appears to work. Still the same logic, because any changes to bowtie*/build will run the align modules also. So the bowtie_align tags may not even be necessary, since we can't seem to get the bowtie*_build tags to kick off on their own anyways. Thank you for coming to my TED talk.	2021-02-03 20:15:56 -06:00
Edmund Miller	6fe7b48b5b	Revert "Run alllll the testsgit add .github/workflows/pytest-workflow.yml" ... This reverts commit ffc218e51b.	2021-02-03 20:08:11 -06:00
Edmund Miller	431c699727	Revert "ci: Test bowtie-build instead of _" ... This reverts commit 9b454416d2.	2021-02-03 20:06:05 -06:00
drpatelh	ffc218e51b	Run alllll the testsgit add .github/workflows/pytest-workflow.yml	2021-02-03 20:03:45 -06:00
drpatelh	fe3cb87f6d	Direct download Singularity containers	2021-02-03 20:03:45 -06:00
drpatelh	0c88ff7458	Upgrade Singularity and change TMPDIR for pytest output	2021-02-03 20:03:43 -06:00
Michael L Heuer	05d257e8f5	Fix lint errors	2021-02-03 19:34:25 -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
Harshil Patel	5f810beaa4	Merge pull request #142 from drpatelh/split_tests ... Split tests	2021-02-03 18:09:30 +00:00
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
drpatelh	239cbe17ad	Fix relative paths	2021-02-03 16:20:02 +00:00
drpatelh	38c3ecfac6	Merge branch 'master' of https://github.com/nf-core/modules into split_tests	2021-02-03 16:05:06 +00:00
drpatelh	743ba37d4b	Update filters paths	2021-02-03 16:04:43 +00:00
drpatelh	ff23473e82	Restructure tests to run individually for each module	2021-02-03 16:02:58 +00:00
Harshil Patel	bffe3bb7b5	Merge pull request #140 from drpatelh/containers ... Add build ids for all Conda packages defined in modules	2021-02-03 15:49:45 +00:00
drpatelh	3968c18fd7	Only run Docker tests	2021-02-03 14:04:58 +00:00
drpatelh	8be5e05111	Remove bam md5sum check for bowtie	2021-02-03 13:46:44 +00:00
drpatelh	9e44b0f4f2	Add conda clean step to action	2021-02-03 12:57:55 +00:00
drpatelh	1512c9af74	Unable to test BAM due to command	2021-02-03 12:26:10 +00:00
drpatelh	49fecaa4f0	Switch channel order	2021-02-03 12:07:39 +00:00
drpatelh	16b32495e4	Remove deprecated modules that have now been added	2021-02-03 11:38:15 +00:00
drpatelh	9d097e7aeb	Remove unrequired file	2021-02-03 11:34:05 +00:00
drpatelh	673d463208	bowtie - add mulled build info	2021-02-03 11:33:31 +00:00
drpatelh	423144808c	seacr - add build info for mulled container	2021-02-03 11:05:10 +00:00