Jeremiah
00c70f4b2c
Update snakefmt to 0.3.0 and black to 20.3 (now supported by snakefmt). ( #1212 )
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* Update snakefmt to 0.3.0 and black to 20.3 (now suppored by snakefmt).
* Update pipfile for ansible 5.0
* Align pipfile python with Docker alpine image
* Explicitly pin python minor version in dockerfile
* Ansible updates
* Add missing cryptography dependencies
* Eliminate deprecated ansible syntax
* Update expected output for ansible
* Try to add regex to handle test run length
* Yaml doc syntax fixes
* Flailing attempt at tap wildcard
* Catch dynamic output from ansible-lint
* Update regex
* Fix regex statement
* Fix tap output
* Update go error message (issue from master branch)
* Fix regex
* Ansible strikes back
* Fix tap output
* Fix json tap
* Update r tap
2021-02-17 07:32:40 -06:00
Zack Koppert
6602bf49f9
Delete codeql-analysis.yml
2021-02-12 21:28:14 -08:00
Zack Koppert
732574b1b2
Add code scanning
2021-02-12 21:25:25 -08:00
JonZeolla
7c36dcdc1a
Fix the default hadolint rule name in the documentation ( #1179 )
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* Fix default hadolint rule name
* Rename github actions hadolint config in line with the default
2021-02-03 09:13:02 -06:00
dependabot[bot]
1df69f651f
Bump yoheimuta/protolint from v0.28.0 to v0.28.1 ( #1169 )
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* Bump yoheimuta/protolint from v0.28.0 to v0.28.1
Bumps yoheimuta/protolint from v0.28.0 to v0.28.1.
Signed-off-by: dependabot[bot] <support@github.com>
* maybe
* maybe
* use better docker
* use better docker
* use better docker
* use better docker
* use better docker
* use better docker
* fixed it
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Admiral Awkbar <admiralawkbar@github.com>
2021-02-03 09:08:08 -06:00
Zack Koppert
f7482feec2
move back to latest for linting this repo
2021-01-29 22:35:36 -08:00
Zack Koppert
93e067cf82
revert to get order of operations right
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this enables an automated deploy. will reroll in a minute to 3.14.5
2021-01-29 21:14:18 -08:00
Zack Koppert
469e002c2e
testing versioning ( #1171 )
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* Synchronize versions for upcoming release potentially addressing #490
2021-01-29 21:06:59 -08:00
Marco Ferrari
ab8780a58f
Install, configure, and run jscpd. Add missing tests ( #1032 )
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Co-authored-by: Gabo <gabo.fdc@gmail.com>
Co-authored-by: Matt Desmond <beardofedu@github.com>
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
2021-01-27 20:47:34 +01:00
dependabot[bot]
b50d9ee298
Bump actions/stale from v3.0.14 to v3.0.15 ( #1159 )
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Bumps [actions/stale](https://github.com/actions/stale ) from v3.0.14 to v3.0.15.
- [Release notes](https://github.com/actions/stale/releases )
- [Commits](https://github.com/actions/stale/compare/v3.0.14...86561461b92875de77a8b2d2e75f004c826e8f45 )
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
2021-01-25 09:29:09 -06:00
Admiralawkbar
aa7273e80f
fix order
2020-12-04 18:06:17 -06:00
Admiralawkbar
92697323c5
fix docker
2020-12-04 17:32:48 -06:00
Admiralawkbar
5c89819243
fix docker
2020-12-04 17:31:42 -06:00
Lukas Gravley
682cef3a47
Better deploy ( #1060 )
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* much better
* kill spaces
* friday typos
2020-12-04 17:21:08 -06:00
Lukas Gravley
848d9d911d
much better ( #1059 )
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* much better
* kill spaces
2020-12-04 17:15:51 -06:00
Lukas Gravley
37b098dff5
Try to build with caching to help build times ( #1051 )
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* trying this out
* adding auth
* adding more tags
* check log
* try2
* fix vars
* remove debug
* fix tap
* Revert "fix tap"
This reverts commit 3e1fa4c704
2020-12-04 12:49:09 -06:00
Thad Craft
32b3cde716
Enable @SuppressWarnings annotation support by default for Java ( #1052 )
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* Enable @SuppressWarnings annotation support by default for Java checkstyle
* Ensure that args is used
* Add updates to the sun_checks in .github/linters
* Comment out Javadoc linter to remove need for package-info
* Fix expected-JAVA.tap to match new test cases
* Fix expected-JAVA.tap to match output
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
2020-12-04 08:46:42 -06:00
Lukas Gravley
6f1a131b14
fixing logic for file find ( #1049 )
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* fixing logic
* fix warn error
* fix files
* maybe?
* fix test name
* fix test
2020-12-03 16:17:55 -06:00
Gabriel Diaz
981de6bcfa
Update CODEOWNERS ( #1036 )
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* Update CODEOWNERS
Add @ferrarimarco as codeowner
* kill space
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
2020-11-30 11:15:52 -06:00
dependabot[bot]
0246dc5215
Bump actions/stale from v3.0.13 to v3.0.14 ( #1025 )
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Bumps [actions/stale](https://github.com/actions/stale ) from v3.0.13 to v3.0.14.
- [Release notes](https://github.com/actions/stale/releases )
- [Commits](https://github.com/actions/stale/compare/v3.0.13...87c2b794b9b47a9bec68ae03c01aeb572ffebdb1 )
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
2020-11-23 09:06:53 -06:00
Marco Ferrari
241f9f2cad
Harden testing ( #982 )
2020-11-20 09:12:31 -06:00
Lukas Gravley
20c5d593b1
fixThatEcho ( #1002 )
2020-11-16 10:25:04 -06:00
Marco Ferrari
7862654394
Fix editorconfig-checker errors
2020-11-05 23:21:41 +01:00
Lukas Gravley
209f8bcb7f
Merge pull request #956 from github/update-issue-template-bug
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Update bug issue template with logging instructions
2020-11-04 09:59:46 -06:00
Marco Ferrari
c01d0bc870
Update bug issue template with logging instructions
2020-11-04 14:33:42 +01:00
dependabot[bot]
134c891be0
Bump actions/checkout from v2.3.3 to v2.3.4
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Bumps [actions/checkout](https://github.com/actions/checkout ) from v2.3.3 to v2.3.4.
- [Release notes](https://github.com/actions/checkout/releases )
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md )
- [Commits](https://github.com/actions/checkout/compare/v2.3.3...5a4ac9002d0be2fb38bd78e4b4dbde5606d7042f )
Signed-off-by: dependabot[bot] <support@github.com>
2020-11-04 05:43:17 +00:00
dependabot[bot]
8c4f89ee26
Bump actions/stale from v3.0.12 to v3.0.13
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Bumps [actions/stale](https://github.com/actions/stale ) from v3.0.12 to v3.0.13.
- [Release notes](https://github.com/actions/stale/releases )
- [Commits](https://github.com/actions/stale/compare/v3.0.12...af4072615903a8b031f986d25b1ae3bf45ec44d4 )
Signed-off-by: dependabot[bot] <support@github.com>
2020-11-03 05:45:43 +00:00
Marco Ferrari
fcce194d34
Merge TestCodebase and LintCodebase
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Change-Id: I9a044fefe96e400b8e3320842b53fe97af2a7b40
2020-10-17 16:12:55 +02:00
Marco Ferrari
ad1a2a5877
Enable debug output during CI
2020-10-15 16:45:18 +02:00
Lukas Gravley
6eaa2a8da0
Merge pull request #828 from dec5e/full-checkout
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Fetch full git history to get a proper list of changed files within super-linter
2020-10-12 10:19:06 -05:00
dependabot[bot]
76eac0a124
Bump actions/stale from v3.0.11 to v3.0.12
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Bumps [actions/stale](https://github.com/actions/stale ) from v3.0.11 to v3.0.12.
- [Release notes](https://github.com/actions/stale/releases )
- [Commits](https://github.com/actions/stale/compare/v3.0.11...44f9eae0adddf72dbf3eedfacc999f70afcec1a8 )
Signed-off-by: dependabot[bot] <support@github.com>
2020-10-12 06:18:42 +00:00
Andrei Artemov
56b32c3704
Fetch full git history to get a proper list of changed files within super-linter
2020-10-09 14:17:56 +03:00
Lucas Gravley
68d629d461
fix pip
2020-10-08 09:14:31 -05:00
Lucas Gravley
08c1113afc
fix it
2020-10-08 09:11:26 -05:00
Lucas Gravley
2bec091dbb
adding rules
2020-10-08 09:05:32 -05:00
dependabot[bot]
55bdf97202
Bump actions/checkout from v2.3.2 to v2.3.3
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Bumps [actions/checkout](https://github.com/actions/checkout ) from v2.3.2 to v2.3.3.
- [Release notes](https://github.com/actions/checkout/releases )
- [Changelog](https://github.com/actions/checkout/blob/main/CHANGELOG.md )
- [Commits](https://github.com/actions/checkout/compare/v2.3.2...a81bbbf8298c0fa03ea29cdc473d45769f953675 )
Signed-off-by: dependabot[bot] <support@github.com>
2020-09-24 05:42:06 +00:00
Marco Ferrari
f24f52be11
Lint with Kubeval and fixes
2020-09-22 01:49:01 +02:00
dependabot[bot]
420a7c4b09
Bump actions/stale from v3.0.10 to v3.0.11
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Bumps [actions/stale](https://github.com/actions/stale ) from v3.0.10 to v3.0.11.
- [Release notes](https://github.com/actions/stale/releases )
- [Commits](https://github.com/actions/stale/compare/v3.0.10...1849651e2aa1b1d6d2cba4c90c719f4b6c929a28 )
Signed-off-by: dependabot[bot] <support@github.com>
2020-09-14 05:43:25 +00:00
kpj
1e453be7fa
[Snakemake] Update codebase
2020-09-07 16:49:07 +02:00
Goryudyuma(Kei.Matsumoto)
a2b751d503
Update pull_request-template.md
2020-09-05 03:32:19 +09:00
Lukas Gravley
fc938bdc0b
Merge pull request #674 from leviem1/use-ghcr
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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
Lucas Gravley
cd74d80762
adding some cleanup
2020-09-04 09:52:04 -05:00
Victor Martinez
7380bad950
Validate docker labels in the DEV workflow
2020-09-04 10:26:13 +01:00
Thulio Ferraz Assis
2d259418a7
fix: comment typo for GH Container Registry
2020-09-02 11:11:56 -05:00
Josselin
f34b084586
Add support for black config file
2020-09-02 11:28:57 +02:00
Lucas Gravley
e1c5ac81cf
fixed dumb bug
2020-08-24 12:09:00 -05:00
dependabot[bot]
7017c233c9
Bump actions/github-script from v2 to v3
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Bumps [actions/github-script](https://github.com/actions/github-script ) from v2 to v3.
- [Release notes](https://github.com/actions/github-script/releases )
- [Commits](https://github.com/actions/github-script/compare/v2...626af12fe9a53dc2972b48385e7fe7dec79145c9 )
Signed-off-by: dependabot[bot] <support@github.com>
2020-08-24 05:47:32 +00:00
Lucas Gravley
a59f74a287
small cleanup
2020-08-20 13:18:17 -05:00
Lucas Gravley
17a4bd2271
adding some dope code
2020-08-20 12:58:11 -05:00
