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Author SHA1 Message Date
Lukas Gravley
dba3bd1f59
Merge pull request #702 from github/dependabot/pip/dependencies/snakemake-5.24.0 
Bump snakemake from 5.23.0 to 5.24.0 in /dependencies
 2020-09-10 10:21:13 -05:00
Lukas Gravley
b85816a2cf
Merge pull request #703 from github/dependabot/npm_and_yarn/dependencies/npm-groovy-lint-7.6.3 
Bump npm-groovy-lint from 7.6.1 to 7.6.3 in /dependencies
 2020-09-10 10:20:58 -05:00
Lukas Gravley
028fbe4ee8
Merge pull request #700 from github/dependabot/docker/borkdude/clj-kondo-2020.09.09 
Bump borkdude/clj-kondo from 2020.07.29 to 2020.09.09
 2020-09-10 10:20:38 -05:00
Marco Ferrari
ad9c0081f4 Fix list files function typos 2020-09-10 12:10:12 +02:00
NicolasVuillamy
27afc50d60 Set GROOVY Linter failure level to warning 2020-09-10 11:07:05 +02:00
NicolasVuillamy
3a7bae504e Make Super-Linter more famous with badge links on repos using it :) 2020-09-10 10:10:03 +02:00
dependabot[bot]
647f3c2ec5
Bump npm-groovy-lint from 7.6.1 to 7.6.3 in /dependencies 
Bumps [npm-groovy-lint](https://github.com/nvuillam/npm-groovy-lint) from 7.6.1 to 7.6.3.
- [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/v7.6.1...v7.6.3)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-10 05:19:45 +00:00
dependabot[bot]
0ca8a0bae4
Bump snakemake from 5.23.0 to 5.24.0 in /dependencies 
Bumps [snakemake](https://github.com/snakemake/snakemake) from 5.23.0 to 5.24.0.
- [Release notes](https://github.com/snakemake/snakemake/releases)
- [Commits](https://github.com/snakemake/snakemake/compare/v5.23.0...v5.24.0)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-10 05:19:22 +00:00
dependabot[bot]
5ada8d3058
Bump @coffeelint/cli from 3.2.10 to 4.0.0 in /dependencies 
Bumps [@coffeelint/cli](https://github.com/coffeelint/coffeelint) from 3.2.10 to 4.0.0.
- [Release notes](https://github.com/coffeelint/coffeelint/releases)
- [Changelog](https://github.com/coffeelint/coffeelint/blob/master/CHANGELOG.md)
- [Commits](https://github.com/coffeelint/coffeelint/compare/v3.2.10...v4.0.0)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-10 05:18:32 +00:00
dependabot[bot]
79447b0fb4
Bump borkdude/clj-kondo from 2020.07.29 to 2020.09.09 
Bumps borkdude/clj-kondo from 2020.07.29 to 2020.09.09.

Signed-off-by: dependabot[bot] <support@github.com>
 2020-09-10 05:15:33 +00:00
Lukas Gravley
767a39e107
Merge pull request #684 from nvuillam/master 
Allow to include and exclude files from linting
 2020-09-09 14:39:55 -05:00
NicolasVuillamy
c86e90b3d0 Solve conflicts + format 2020-09-09 20:22:32 +02:00
NicolasVuillamy
f072bc5c8d Merge remote-tracking branch 'github/master' 2020-09-09 20:18:21 +02:00
Lukas Gravley
9f3eb7d454
Merge pull request #679 from Goryudyuma/just-filter-the-git-folder 
Just filter the .git folder
 2020-09-09 10:53:19 -05:00
Lucas Gravley
b5d42bf181 this makes no sense 2020-09-09 10:37:02 -05:00
Lucas Gravley
880380d118 if i could only read 2020-09-09 10:18:12 -05:00
Lucas Gravley
dbd4cd673d this has to be right 2020-09-09 10:04:21 -05:00
Lucas Gravley
eb67d9b9c6 fix that dumb action 2020-09-09 09:28:39 -05:00
Lucas Gravley
bae75b456b more fix 2020-09-09 09:24:57 -05:00
Lucas Gravley
17c3ded695 i forgot how this works 2020-09-09 09:24:27 -05:00
Lukas Gravley
e9811c85d6
Update lib/worker.sh 
yes

Co-authored-by: Goryudyuma(Kei.Matsumoto) <6211370+Goryudyuma@users.noreply.github.com>
 2020-09-08 16:00:12 -05:00
Lukas Gravley
133eb655ff
Merge pull request #696 from ferrarimarco/fix-hadolint-config 
Fix getting filename for hidden files
 2020-09-08 15:59:05 -05:00
Lucas Gravley
fd42f4b3fb science... 2020-09-08 15:45:17 -05:00
Marco Ferrari
83666ffaba Fix getting filename for hidden files 2020-09-08 19:20:49 +02:00
Lucas Gravley
0e5f996c3c look at folders and not file names 2020-09-08 12:16:59 -05:00
Lucas Gravley
a0d4012b67 like this? 2020-09-08 12:01:17 -05:00
Lucas Gravley
53995952e0 Merge branch 'master' into just-filter-the-git-folder 2020-09-08 10:43:59 -05:00
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