nextstrain .github issues

nextstrain / .github

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pathogen-repo-build: Cancel AWS Batch job when GitHub run is cancelled

#108 victorlin closed 2 days ago
2
Split `make linkcheck` out into a distinct job [#106]

#107 genehack opened 1 month ago
0
docs-ci: `make linkcheck` prone to transient network failures

#106 victorlin opened 1 month ago
6
actions/setup-debugger: Pause for 1 second after interrupting an exec...

#105 tsibley closed 1 month ago
0
Add `make linkcheck` step, to check external links [#29]

#104 genehack closed 1 month ago
4
pathogen-repo-ci: Add input for GH Action runner

#103 joverlee521 opened 2 months ago
2
workflow-templates/debugging-runner: Replace a branch name that's gone

#102 tsibley closed 2 months ago
0
`pathogen-repo-build` improvements

#101 joverlee521 closed 3 months ago
1
pathogen-repo-build: Generate a Snakemake report for workflow

#100 joverlee521 opened 3 months ago
6
pathogen-repo-ci: Use status functions in conditionals instead of continue-on-error: true

#99 tsibley closed 3 months ago
1
pathogen-repo-ci: Keep running even if one of the pathogen workflows fails

#98 tsibley closed 3 months ago
1
`pathogen-repo-build` should save `AWS_DEFAULT_REGION` envvar

#97 joverlee521 closed 3 months ago
1
pathogen-repo-ci: Don't run workflow build steps if they're not going to do anything

#96 tsibley closed 3 months ago
2
Make `pathogen-repo-ci` fail when config is missing or no builds are attempted

#95 genehack closed 3 months ago
8
Update pathogen repos to conform to smart `pathogen-repo-ci`

#94 joverlee521 closed 2 months ago
1
Pin existing uses of `pathogen-repo-ci`

#93 joverlee521 closed 3 months ago
3
Should the pathogen-repo-ci be louder if no workflows are run?

#92 joverlee521 closed 3 months ago
7
actions/shellcheck: Check GitHub Actions composite actions too

#91 tsibley closed 3 months ago
1
Update pathogen-repo-ci

#90 genehack closed 3 months ago
8
Update pathogen-repo-ci to "generic"/"smart" workflow

#89 genehack closed 3 months ago
5
pathogen-repo-build: Only write AWS_SESSION_TOKEN into the envdir if it's not empty

#88 tsibley closed 4 months ago
2
write-envdir: Explicitly error with a better message when a requested var is unset

#87 tsibley closed 4 months ago
1
Update `pathogen-repo-ci` to better support CI [#63]

#86 genehack closed 4 months ago
4
Remove intentional failure test #48 #58

#85 genehack closed 4 months ago
1
Standardize pathogen-repo-ci use across pathogen repos

#84 joverlee521 closed 2 months ago
3
Excise a couple mentions of project boards

#82 genehack closed 4 months ago
0
pathogen-repo-build: support assuming AWS role for runtime permissions

#81 joverlee521 closed 4 months ago
9
pathogen-repo-build: Bump minimum Nextstrain CLI version to 8.3.0

#80 joverlee521 closed 4 months ago
2
Output AWS Batch job ID from pathogen-repo-build worklfow

#79 joverlee521 closed 3 months ago
5
pathogen-repo-build: Move `build.log` to ignored directory

#78 joverlee521 closed 6 months ago
2
CI: pathogen-repo-build (aws-batch) does not output full logs to build.log

#77 joverlee521 closed 6 months ago
7
pathogen-repo-build: always generate AWS Batch Job ID & summary

#76 joverlee521 closed 6 months ago
3
setup-nextstrain-cli: Use Docker runtime on Windows with linux/amd64 containers

#75 tsibley closed 7 months ago
2
Upgrade actions

#74 tsibley closed 8 months ago
0
Fix up pathogen-repo-build

#73 tsibley closed 8 months ago
1
Fix CI

#72 tsibley closed 8 months ago
3
build(deps): bump actions/upload-artifact from 3 to 4

#71 dependabot[bot] closed 8 months ago
1
build(deps): bump actions/checkout from 3 to 4

#70 dependabot[bot] closed 8 months ago
1
build(deps): bump docker/login-action from 2 to 3

#69 dependabot[bot] closed 8 months ago
0
build(deps): bump actions/setup-python from 3 to 5

#68 dependabot[bot] closed 8 months ago
1
build(deps): bump conda-incubator/setup-miniconda from 2 to 3

#67 dependabot[bot] closed 5 months ago
2
Allow pathogen-repo-ci to use a local version of Augur

#66 joverlee521 closed 4 months ago
2
Nested pathogen-repo-ci

#65 joverlee521 closed 4 months ago
2
pathogen-repo-build: Extend the workflow summary for AWS Batch with more examples

#64 tsibley closed 12 months ago
0
ENH: Allow pathogen-repo-ci to invoke workflow in subfolder

#63 corneliusroemer closed 3 months ago
2
Allow `pathogen-repo-ci` to run workflow in subdir via `build-dir` arg

#62 corneliusroemer closed 4 months ago
10
setup-nextstrain-cli: Remove unnecessary nextstrain update

#61 victorlin closed 1 year ago
1
Run nextstrain update on conda runtime only

#60 victorlin closed 1 year ago
1
Draft: Action to wrap and invert exit status of another action

#59 corneliusroemer closed 1 year ago
1
CI shouldn't fail on expected failure

#58 corneliusroemer closed 4 months ago
5