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Author SHA1 Message Date
Lukas Gravley
1d46677b4f
Merge pull request #689 from kpj/master 
Add `snakemake --lint`/`snakefmt` support to super-linter
 2020-09-08 10:31:19 -05:00
Lukas Gravley
134cd1f032
Merge pull request #695 from github/primetheus/pylint-import-error 
added import-error to the pylint disable rules
 2020-09-08 10:26:22 -05:00
Lucas Gravley
b9aedb4dee fix lock 2020-09-08 10:07:58 -05:00
Lucas Gravley
20c0ebf419 fix lock 2020-09-08 10:04:29 -05:00
Lucas Gravley
a6c9656015 fixing vars 2020-09-08 09:47:57 -05:00
Lukas Gravley
1928fa613a
Merge pull request #683 from github/source-label 
Add org.opencontainers.image.source LABEL to Dockerfile
 2020-09-08 09:24:47 -05:00
Lukas Gravley
95d153605a
Merge pull request #687 from github/dependabot/npm_and_yarn/dependencies/eslint-plugin-jest-24.0.0 
Bump eslint-plugin-jest from 23.20.0 to 24.0.0 in /dependencies
 2020-09-08 09:24:01 -05:00
Lukas Gravley
9cd5ddc1ea
Merge pull request #688 from github/dependabot/pip/dependencies/yq-2.11.0 
Bump yq from 2.10.1 to 2.11.0 in /dependencies
 2020-09-08 09:23:48 -05:00
Lukas Gravley
bb979f72dd
Merge pull request #690 from github/dependabot/docker/golangci/golangci-lint-v1.31.0 
Bump golangci/golangci-lint from v1.30.0 to v1.31.0
 2020-09-08 09:23:34 -05:00
Lukas Gravley
11244b1b6a
Merge pull request #691 from github/dependabot/npm_and_yarn/dependencies/npm-groovy-lint-7.6.1 
Bump npm-groovy-lint from 7.5.4 to 7.6.1 in /dependencies
 2020-09-08 09:23:20 -05:00
kpj
6f6e6e9d03 [Snakemake] Remove wrong function argument 2020-09-08 11:26:48 +02:00
kpj
581f07a32b [Snakemake] Fix 'LINTER_NAME' 2020-09-08 10:19:56 +02:00
kpj
3762abecb7 [Snakemake] Install extra psutil dependency (linux-headers) 2020-09-08 10:02:44 +02:00
kpj
8ac1c99a2e [Snakemake] Support both formatting using 'snakefmt' and linting using 'snakemake --lint' 2020-09-08 09:38:48 +02:00
kpj
ad262196ba [Snakemake] Also lint 'Snakefile' (without '.smk' suffix) 2020-09-08 09:11:54 +02:00
dependabot[bot]
901645f649
Bump npm-groovy-lint from 7.5.4 to 7.6.1 in /dependencies 
Bumps [npm-groovy-lint](https://github.com/nvuillam/npm-groovy-lint) from 7.5.4 to 7.6.1.
- [Release notes](https://github.com/nvuillam/npm-groovy-lint/releases)
- [Changelog](https://github.com/nvuillam/npm-groovy-lint/blob/master/CHANGELOG.md)
- [Commits](https://github.com/nvuillam/npm-groovy-lint/compare/v7.5.4...v7.6.1)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-08 05:41:33 +00:00
dependabot[bot]
8cd7dfabd7
Bump golangci/golangci-lint from v1.30.0 to v1.31.0 
Bumps golangci/golangci-lint from v1.30.0 to v1.31.0.

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-08 05:40:49 +00:00
kpj
53f551c8b0 [Snakemake] Add '--config' parameter to 'snakefmt' calls 2020-09-07 17:26:58 +02:00
kpj
0c5029bf67 [Snakemake] Actually run 'snakefmt' tests 2020-09-07 17:20:56 +02:00
kpj
2d7ba8d26b [Snakemake] Add 'snakefmt' to dependencies 2020-09-07 17:12:44 +02:00
kpj
34e9e57419 [Snakemake] Add another issue to bad test case 2020-09-07 17:01:19 +02:00
kpj
ea5d4aa2a1 [Snakemake] Update test cases 2020-09-07 16:55:06 +02:00
kpj
1e453be7fa [Snakemake] Update codebase 2020-09-07 16:49:07 +02:00
kpj
15eec55117 [Snakemake] Update documentation 2020-09-07 16:37:22 +02:00
dependabot[bot]
8e85f7e8c0
Bump yq from 2.10.1 to 2.11.0 in /dependencies 
Bumps [yq](https://github.com/kislyuk/yq) from 2.10.1 to 2.11.0.
- [Release notes](https://github.com/kislyuk/yq/releases)
- [Changelog](https://github.com/kislyuk/yq/blob/develop/Changes.rst)
- [Commits](https://github.com/kislyuk/yq/compare/v2.10.1...v2.11.0)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-07 05:24:29 +00:00
dependabot[bot]
f7e6c9c504
Bump eslint-plugin-jest from 23.20.0 to 24.0.0 in /dependencies 
Bumps [eslint-plugin-jest](https://github.com/jest-community/eslint-plugin-jest) from 23.20.0 to 24.0.0.
- [Release notes](https://github.com/jest-community/eslint-plugin-jest/releases)
- [Changelog](https://github.com/jest-community/eslint-plugin-jest/blob/master/CHANGELOG.md)
- [Commits](https://github.com/jest-community/eslint-plugin-jest/compare/v23.20.0...v24.0.0)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-07 05:23:45 +00:00
NicolasVuillamy
0dba19167d Fix readme 2020-09-05 13:08:35 +02:00
NicolasVuillamy
17d09ffc02 Add README index 2020-09-05 12:55:55 +02:00
NicolasVuillamy
cdfa861984 Documentation 2020-09-05 12:43:30 +02:00
NicolasVuillamy
04c93b4ff5 Add management of FILTER_REGEX_INCLUDE and FILTER_REGEX_EXCLUDE options 2020-09-05 12:25:44 +02:00
Bryan Clark
c92bc10b8e
Add org.opencontainers.image.source LABEL 2020-09-04 14:43:37 -07:00
Zack Koppert
a171005856
Merge pull request #681 from Goryudyuma/fix-pull_request-template-for-lint 
Update pull_request-template.md
 2020-09-04 14:13:47 -07:00
Goryudyuma(Kei.Matsumoto)
a2b751d503
Update pull_request-template.md 2020-09-05 03:32:19 +09:00
Lukas Gravley
828de134a9
this should be right 2020-09-04 13:22:01 -05:00
Goryudyuma(Kei.Matsumoto)
b31b696e00
Just filter the .git folder 2020-09-05 03:08:26 +09:00
Lukas Gravley
fc938bdc0b
Merge pull request #674 from leviem1/use-ghcr 
Move to GitHub Container Registry
 2020-09-04 12:23:35 -05:00
Lucas Gravley
9d2624c0e1 Adding more 2020-09-04 10:54:31 -05:00
Lukas Gravley
c58bab2627
Merge pull request #677 from v1v/feature/version 
Print version, date and revision
 2020-09-04 10:35:38 -05:00
Lucas Gravley
b29eb851d3 make pretty 2020-09-04 10:14:47 -05:00
Lucas Gravley
cd74d80762 adding some cleanup 2020-09-04 09:52:04 -05:00
Lukas Gravley
a3fcb3ea7c
Merge pull request #675 from dmerrick/honoring-disable-errors 
Making MULTI_STATUS honor DISABLE_ERRORS setting
 2020-09-04 09:15:06 -05:00
Lukas Gravley
a961b77f71
Merge pull request #678 from nvuillam/master 
Groovy traps .nf extension (nextflow) + upgrade npm-groovy-lint
 2020-09-04 09:12:34 -05:00
Lukas Gravley
eb36fb7d7c
Merge branch 'master' into master 2020-09-04 08:53:34 -05:00
Lukas Gravley
241b6cb10c
Merge pull request #676 from github/dependabot/npm_and_yarn/dependencies/npm-groovy-lint-7.5.3 
Bump npm-groovy-lint from 7.5.1 to 7.5.3 in /dependencies
 2020-09-04 08:48:22 -05:00
Jared Murrell
0680dd9969
added import-error to the pylint disable rules 2020-09-04 09:22:06 -04:00
NicolasVuillamy
21d75fb89e Groovy traps .nf extension (nextflow) + upgrade npm-groovy-lint 2020-09-04 11:54:31 +02:00
Victor Martinez
7380bad950
Validate docker labels in the DEV workflow 2020-09-04 10:26:13 +01:00
Victor Martinez
d3c992bec7
Print version, date and revision 2020-09-04 09:09:20 +01:00
dependabot[bot]
977c6d4647
Bump npm-groovy-lint from 7.5.1 to 7.5.3 in /dependencies 
Bumps [npm-groovy-lint](https://github.com/nvuillam/npm-groovy-lint) from 7.5.1 to 7.5.3.
- [Release notes](https://github.com/nvuillam/npm-groovy-lint/releases)
- [Changelog](https://github.com/nvuillam/npm-groovy-lint/blob/master/CHANGELOG.md)
- [Commits](https://github.com/nvuillam/npm-groovy-lint/compare/v7.5.1...v7.5.3)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-04 05:25:16 +00:00
Dana Merrick
c64c5c8d60 Cleaner solution 2020-09-03 19:37:10 -04:00