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2658 commits 14 branches 136 tags 133 MiB
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331 commits

Author SHA1 Message Date
Teppei Fukuda
d1c8432796
chore(ci/trivy): replace script with action (#1355) 
* chore: replace script with action

* delete trivy script

* more

Co-authored-by: Admiral Awkbar <admiralawkbar@github.com>
 2021-03-11 09:15:07 -06:00
Lukas Gravley
7d5aaba171
cleaner (#1348) 2021-03-10 09:15:42 -06:00
Lukas Gravley
5109e57ff4
adding dope code (#1333) 
* adding dope code

* fix contains logic
 2021-03-10 08:36:46 -06:00
dependabot[bot]
d6df54fff9
Bump actions/stale from v3.0.17 to v3.0.18 (#1321) 
Bumps [actions/stale](https://github.com/actions/stale) from v3.0.17 to v3.0.18.
- [Release notes](https://github.com/actions/stale/releases)
- [Commits](https://github.com/actions/stale/compare/v3.0.17...3b3c3f03cd4d8e2b61e179ef744a0d20efbe90b4)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-03-08 14:47:12 -06:00
Antonio Yang
60e2561b15
Add clippy for rust (#1277) 
* Add clippy for Rust

* Update ARM test cases

- fix arm good test case
- update tap report

* Lint github workflows release config
 2021-03-08 14:13:04 -06:00
Lukas Gravley
8adde4b298
funny (#1315) 
* funny

* fix the language
 2021-03-05 11:25:06 -06:00
Gabriel Diaz
46df94844c
Add debug info for multi status api calls (#1287) 
* Add debug info for multi status api calls

* Add test for clean action

* Add more verbose

* Test in action context

* Test use local build as action

* Improve debug for raw file array

* Fix shallow fetch

* Fix error messages on diff cmd

* Changed repeated code to function

* Fix quotes
 2021-03-02 08:29:12 -06:00
Lukas Gravley
f84d16fda0
adding sha info (#1272) 
* adding sha info

* add the code
 2021-02-26 13:17:45 -06:00
Lukas Gravley
0031981b46
fixed deploy (#1269) 
* fixed deploy

* fixed pr name

* fixed spacing
 2021-02-26 09:44:32 -06:00
dependabot[bot]
a91f07d277
Bump bobheadxi/deployments from v0.4.3 to v0.5.1 (#1266) 
Bumps [bobheadxi/deployments](https://github.com/bobheadxi/deployments) from v0.4.3 to v0.5.1.
- [Release notes](https://github.com/bobheadxi/deployments/releases)
- [Commits](https://github.com/bobheadxi/deployments/compare/v0.4.3...b069a916b0302c2acd37d1e25a8b03feea400586)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-02-26 08:48:03 -06:00
dependabot[bot]
141a09cdbf
Bump yoheimuta/protolint from v0.28.2 to v0.29.0 (#1261) 
* Bump yoheimuta/protolint from v0.28.2 to v0.29.0

Bumps yoheimuta/protolint from v0.28.2 to v0.29.0.

Signed-off-by: dependabot[bot] <support@github.com>

* fixed it

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: Admiral Awkbar <admiralawkbar@github.com>
 2021-02-25 12:36:23 -06:00
Lukas Gravley
acf858ae79
Adding release process (#1260) 
* adding release process

* fix grep

* fix spacing

* fix spacing

* fix spacing

* fix spacing

* Update docs to reflect new release process

* Add issue template link

* fix version

Co-authored-by: Zack Koppert <zkoppert@github.com>
 2021-02-25 08:57:42 -06:00
Zack Koppert
0e6e3dc908
Remove release drafter and add action.yml step (#1172) 
Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
 2021-02-19 09:09:37 -06:00
dependabot[bot]
8354b3f49b
Bump actions/stale from v3.0.16 to v3.0.17 (#1234) 
Bumps [actions/stale](https://github.com/actions/stale) from v3.0.16 to v3.0.17.
- [Release notes](https://github.com/actions/stale/releases)
- [Commits](https://github.com/actions/stale/compare/v3.0.16...996798eb71ef485dc4c7b4d3285842d714040c4a)

Signed-off-by: dependabot[bot] <support@github.com>

Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
 2021-02-18 23:52:29 -08:00
Zack Koppert
35e2d160a4
Add trivy scans for container security (#1209) 
* Create trivy.yml

* Add descriptive names

* Add fs mode to catch package.lock issues

* use script to get around timeout

* use script to get around timeout

* set it

* set it

* update deps

* Align with comment style

* fix headeer

* npm audit fix to patch vulnerabilities

Signed-off-by: Zack Koppert <zkoppert@github.com>

Co-authored-by: Lukas Gravley <admiralawkbar@github.com>
 2021-02-17 16:03:30 -06:00
dependabot[bot]
2e8c31622a
Bump actions/stale from v3.0.15 to v3.0.16 (#1189) 
Bumps [actions/stale](https://github.com/actions/stale) from v3.0.15 to v3.0.16.
- [Release notes](https://github.com/actions/stale/releases)
- [Commits](https://github.com/actions/stale/compare/v3.0.15...9d6f46564a515a9ea11e7762ab3957ee58ca50da)

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>
 2021-02-17 12:17:42 -06:00
Lukas Gravley
974ab62ea1
fix actions (#1222) 2021-02-17 09:54:21 -06:00
Jeremiah
00c70f4b2c
Update snakefmt to 0.3.0 and black to 20.3 (now supported by snakefmt). (#1212) 
* 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) 
* 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) 
* 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 
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) 
* 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) 
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) 
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) 
* much better

* kill spaces

* friday typos
 2020-12-04 17:21:08 -06:00
Lukas Gravley
848d9d911d
much better (#1059) 
* 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) 
* trying this out

* adding auth

* adding more tags

* check log

* try2

* fix vars

* remove debug

* fix tap

* Revert "fix tap"

This reverts commit 3e1fa4c704.

* checks

* get sha another way

* fix env vars

* making more env

* checking names

* fix repo name

* fix copypasta

* remove spaces

* fixed container name

* fix var and stop uploading dev
 2020-12-04 12:49:09 -06:00
Thad Craft
32b3cde716
Enable @SuppressWarnings annotation support by default for Java (#1052) 
* 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) 
* 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) 
* 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) 
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 
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 
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 
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 
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 
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 
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 
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 
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 
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 
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
Lukas Gravley
5970f28f6b
Merge pull request #588 from assignUser/chktex 
Add LaTeX support
 2020-08-19 13:12:11 -05:00
assignUser
8224e9e6e5 fix exit code 2020-08-19 17:51:07 +00:00
assignUser
e1bc1df9e7 add latex support 2020-08-18 22:54:32 +00:00
Lukas Gravley
308c1fd5aa
Merge pull request #569 from assignUser/master 
Add lintr support to super-lint
 2020-08-18 16:08:35 -05:00
Lukas Gravley
173294201d
Update CODEOWNERS 2020-08-18 08:51:15 -05:00
Lukas Gravley
931eba8a10
Update CODEOWNERS 2020-08-17 12:42:15 -05:00
Lucas Gravley
2a272a5925 adding more logic 2020-08-17 09:09:05 -05:00
assignUser
0f47f68445 add .lintr detection 2020-08-17 12:01:25 +00:00
assignUser
f6fcfb7922 adjust .lintr 2020-08-16 00:20:06 +00:00
assignUser
d4f4bbd255 everything except linter.sh 2020-08-15 18:21:57 +00:00
dependabot[bot]
02cec94759
Bump actions/stale from v3.0.9 to v3.0.10 
Bumps [actions/stale](https://github.com/actions/stale) from v3.0.9 to v3.0.10.
- [Release notes](https://github.com/actions/stale/releases)
- [Commits](https://github.com/actions/stale/compare/v3.0.9...e976731ae824d9e0165ade8f9e2e8f1743b2fc09)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-08-12 05:30:00 +00:00
Lucas Gravley
fb791083fb fix config 2020-08-11 13:40:38 -05:00
Lucas Gravley
9856082087 add sql goods 2020-08-11 12:30:00 -05:00
Lucas Gravley
c3953b792c adding better logics 2020-08-11 08:09:57 -05:00
Barry
d03cfd78aa Finish sentence 2020-08-11 00:04:35 +01:00
Barry
fe72e27641 Only run deploy to Docker on original repo and not forks 2020-08-10 23:55:52 +01:00
Lukas Gravley
cfb9cf66e3
Merge pull request #546 from github/FixMerge 
Fixing Actions job name
 2020-08-10 12:06:37 -05:00
Lucas Gravley
5e7052202c fix name 2020-08-10 10:44:39 -05:00
dependabot[bot]
6da5e0756a
Bump actions/checkout from v2.3.1 to v2.3.2 
Bumps [actions/checkout](https://github.com/actions/checkout) from v2.3.1 to v2.3.2.
- [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/v2.3.1...2036a08e25fa78bbd946711a407b529a0a1204bf)

Signed-off-by: dependabot[bot] <support@github.com>
 2020-08-10 05:38:32 +00:00
Lukas Gravley
1746012dab
Merge pull request #534 from marghidanu/master 
PerlCritic basic implementation
 2020-08-07 11:56:09 -05:00
Tudor Marghidanu
523b14a2df PerlCritic basic implementation 2020-08-07 14:58:40 +02:00
Lucas Gravley
4241daf621 fixed bad var 2020-08-06 14:31:58 -05:00
Lucas Gravley
6701372154 so dank 2020-08-06 13:16:23 -05:00
Lucas Gravley
5ffa5518db fixed it real good 2020-08-06 10:56:06 -05:00
Lukas Gravley
4973e1bd1c
Merge pull request #459 from quackduck/quackduck-pr 
Work on adding Java
 2020-08-06 09:25:52 -05:00
Thomas Hughes
59badeabdd
fix xml check, add javadoc 2020-08-05 16:50:12 -05:00
Lucas Gravley
a216a6623a adding some good code 2020-08-05 13:35:14 -05:00
Lukas Gravley
c311a231e4
Update CODEOWNERS 2020-08-05 13:07:43 -05:00
Lukas Gravley
d1908149ac
Update CODEOWNERS 2020-08-05 13:07:12 -05:00
Lukas Gravley
ffcfaa3cd4
Update CODEOWNERS 2020-08-05 13:06:14 -05:00
Zack Koppert
9d7d3425c0
Separate maintainer and contributor jobs 2020-08-05 10:24:47 -07:00
Lukas Gravley
63e3cce26e
adding nice stuff 2020-08-05 11:50:59 -05:00
Lukas Gravley
ec7f7ca450
adding dependabot 2020-08-05 11:45:55 -05:00