33 commits

Author	SHA1	Message	Date
Edmund Miller	f05134e855	ci: Add nextflow.log	2021-01-22 12:18:45 -06:00
Edmund Miller	73bd2d499e	ci: Add keep-workflow-wd-on-fail	2021-01-22 12:07:59 -06:00
Edmund Miller	a1f4d53d3e	ci: Upload logs on failures	2021-01-22 12:04:41 -06:00
drpatelh	992232b340	Bump NF version to 20.11.0-edge	2020-12-14 00:14:28 +00:00
Edmund Miller	8d27ff53c5	ci: Support multiple nextflow versions	2020-12-09 09:56:40 -06:00
Edmund Miller	6d8ba714d5	ci(fastqc): Use 20.10.0 => ''	2020-12-04 08:23:19 -06:00
Edmund Miller	8cd635f757	ci(fastqc): Fix test matrix	2020-12-01 11:13:43 -06:00
Edmund Miller	98c629583a	ci: Test whether subdirectories are breaking workflows	2020-11-30 19:03:56 -06:00
Edmund Miller	691df9d469	style(actions): Create seperate software dir ... For future subworkflows	2020-11-24 18:57:53 -06:00
Edmund Miller	f235732a58	ci(fastqc): Use both threads in GitHub runner	2020-11-16 13:45:00 -06:00
Edmund Miller	6d857a2584	ci(fastqc): Run pytest-workflow instead of workflow ... This will check for the actual output files and their contents not just whether the module runs or not.	2020-11-16 09:37:45 -06:00
drpatelh	49e37cb22c	Add profile docker	2020-08-07 10:07:20 +01:00
drpatelh	7efd46b489	Add nextflow.config	2020-08-07 09:59:19 +01:00
drpatelh	fab020461b	Add -with-docker	2020-08-07 09:44:16 +01:00
drpatelh	b0abd14135	Update tests	2020-08-07 09:31:27 +01:00
drpatelh	cb08a7326a	Change NF version	2020-08-07 00:38:56 +01:00
drpatelh	3ec4f63fd8	Use correct link to fastqc	2020-08-05 16:28:42 +01:00
Phil Ewels	dcc4beacb1	Fix FastQC test	2020-07-17 11:26:50 +02:00
Phil Ewels	9b4634a426	Use latest edge version of NXF for FastQC test	2020-07-17 10:35:17 +02:00
Phil Ewels	e71bb92534	Workflows - trigger on change to workflow and test data too	2020-07-16 17:14:57 +02:00
Phil Ewels	aa24c8d175	Fix a bunch of stuff in GitHub Actions test workflows	2020-07-16 17:11:34 +02:00
Stephen Kelly	4957eb98e5	update GitHub actions for Fastqc	2020-07-16 08:49:08 -04:00
Stephen Kelly	61d44c34d0	update GitHub actions for Fastqc	2020-07-16 08:31:19 -04:00
Phil Ewels	31c0f617b9	Fix up cutadapt tests	2020-07-11 17:14:14 +02:00
Phil Ewels	905e842f36	Update more paths	2020-07-11 14:36:12 +02:00
Phil Ewels	93f7b26aa2	Use submodules for test data	2019-12-06 09:24:33 +01:00
Phil Ewels	51bd2c0277	Ansi log false for tests	2019-12-05 22:20:02 +01:00
Phil Ewels	ef486a908b	Use empty dict instead for workflow	2019-12-05 16:09:28 +01:00
Phil Ewels	d682c6f7a8	Workflows: test everything on paths	2019-12-05 16:08:12 +01:00
Phil Ewels	a065ac3532	Actions: install nextflow	2019-12-05 16:03:00 +01:00
Phil Ewels	acc4eb0054	GitHub actions - run nextflow in a docker image	2019-12-05 15:57:32 +01:00
Phil Ewels	af766a9cc7	Added TrimGalore	2019-12-05 15:53:38 +01:00
Phil Ewels	497573fc5d	Refactor GitHub actions workflows	2019-12-05 15:44:10 +01:00