Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nextstrain/.github issues and pull requests

#120 - Keep yellow-fever workflows enabled too.

Pull Request - State: closed - Opened by genehack 2 months ago - 1 comment

#119 - keep-workflows-enabled: query for scheduled GH Action workflows

Issue - State: open - Opened by joverlee521 2 months ago
Labels: enhancement

#118 - Keep workflows enabled

Pull Request - State: closed - Opened by joverlee521 2 months ago

#117 - Step conditions using `!cancelled()` need explict success check

Issue - State: open - Opened by genehack 3 months ago - 2 comments
Labels: bug

#116 - docs-ci: Reduce unnecessary linkchecks

Issue - State: open - Opened by victorlin 3 months ago - 5 comments

#114 - Use `github.token` for automated GitHub Releases

Issue - State: open - Opened by victorlin about 1 year ago - 1 comment

#112 - Prevent scheduled workflow from being automatically disabled

Issue - State: closed - Opened by joverlee521 5 months ago - 13 comments

#111 - docs-ci: Check environment-file and pip-install-target inputs

Pull Request - State: closed - Opened by victorlin 4 months ago

#110 - docs-ci: Don't error on timeouts

Pull Request - State: closed - Opened by victorlin 4 months ago - 2 comments

#109 - docs-ci: Use a single build job

Pull Request - State: closed - Opened by victorlin 4 months ago

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

Issue - State: closed - Opened by victorlin 4 months ago - 2 comments
Labels: enhancement

#107 - Split `make linkcheck` out into a distinct job [#106]

Pull Request - State: closed - Opened by genehack 5 months ago - 1 comment

#106 - docs-ci: `make linkcheck` prone to transient network failures

Issue - State: closed - Opened by victorlin 6 months ago - 19 comments

#104 - Add `make linkcheck` step, to check external links [#29]

Pull Request - State: closed - Opened by genehack 6 months ago - 4 comments

#103 - pathogen-repo-ci: Add input for GH Action runner

Issue - State: open - Opened by joverlee521 7 months ago - 2 comments
Labels: enhancement

#101 - `pathogen-repo-build` improvements

Pull Request - State: closed - Opened by joverlee521 8 months ago - 1 comment

#100 - pathogen-repo-build: Generate a Snakemake report for workflow

Issue - State: open - Opened by joverlee521 8 months ago - 6 comments
Labels: enhancement

#98 - pathogen-repo-ci: Keep running even if one of the pathogen workflows fails

Pull Request - State: closed - Opened by tsibley 8 months ago - 1 comment

#97 - `pathogen-repo-build` should save `AWS_DEFAULT_REGION` envvar

Issue - State: closed - Opened by joverlee521 8 months ago - 1 comment

#96 - pathogen-repo-ci: Don't run workflow build steps if they're not going to do anything

Pull Request - State: closed - Opened by tsibley 8 months ago - 2 comments

#95 - Make `pathogen-repo-ci` fail when config is missing or no builds are attempted

Pull Request - State: closed - Opened by genehack 8 months ago - 8 comments

#94 - Update pathogen repos to conform to smart `pathogen-repo-ci`

Issue - State: closed - Opened by joverlee521 8 months ago - 1 comment

#93 - Pin existing uses of `pathogen-repo-ci`

Issue - State: closed - Opened by joverlee521 8 months ago - 3 comments

#92 - Should the pathogen-repo-ci be louder if no workflows are run?

Issue - State: closed - Opened by joverlee521 8 months ago - 7 comments

#91 - actions/shellcheck: Check GitHub Actions composite actions too

Pull Request - State: closed - Opened by tsibley 8 months ago - 1 comment

#90 - Update pathogen-repo-ci

Pull Request - State: closed - Opened by genehack 8 months ago - 8 comments

#89 - Update pathogen-repo-ci to "generic"/"smart" workflow

Issue - State: closed - Opened by genehack 8 months ago - 5 comments
Labels: enhancement

#88 - pathogen-repo-build: Only write AWS_SESSION_TOKEN into the envdir if it's not empty

Pull Request - State: closed - Opened by tsibley 9 months ago - 2 comments

#87 - write-envdir: Explicitly error with a better message when a requested var is unset

Pull Request - State: closed - Opened by tsibley 9 months ago - 1 comment

#86 - Update `pathogen-repo-ci` to better support CI [#63]

Pull Request - State: closed - Opened by genehack 9 months ago - 4 comments

#85 - Remove intentional failure test #48 #58

Pull Request - State: closed - Opened by genehack 9 months ago - 1 comment

#84 - Standardize pathogen-repo-ci use across pathogen repos

Issue - State: closed - Opened by joverlee521 9 months ago - 3 comments

#83 - Explore GitHub issue forms

Issue - State: closed - Opened by victorlin over 2 years ago
Labels: enhancement, revisit sometime

#82 - Excise a couple mentions of project boards

Pull Request - State: closed - Opened by genehack 9 months ago

#81 - pathogen-repo-build: support assuming AWS role for runtime permissions

Pull Request - State: closed - Opened by joverlee521 9 months ago - 9 comments

#80 - pathogen-repo-build: Bump minimum Nextstrain CLI version to 8.3.0

Pull Request - State: closed - Opened by joverlee521 9 months ago - 2 comments

#79 - Output AWS Batch job ID from pathogen-repo-build worklfow

Issue - State: closed - Opened by joverlee521 10 months ago - 5 comments
Labels: enhancement

#78 - pathogen-repo-build: Move `build.log` to ignored directory

Pull Request - State: closed - Opened by joverlee521 11 months ago - 2 comments

#77 - CI: pathogen-repo-build (aws-batch) does not output full logs to build.log

Issue - State: closed - Opened by joverlee521 11 months ago - 7 comments
Labels: bug

#76 - pathogen-repo-build: always generate AWS Batch Job ID & summary

Pull Request - State: closed - Opened by joverlee521 11 months ago - 3 comments

#75 - setup-nextstrain-cli: Use Docker runtime on Windows with linux/amd64 containers

Pull Request - State: closed - Opened by tsibley 12 months ago - 2 comments

#74 - Upgrade actions

Pull Request - State: closed - Opened by tsibley about 1 year ago

#73 - Fix up pathogen-repo-build

Pull Request - State: closed - Opened by tsibley about 1 year ago - 1 comment

#72 - Fix CI

Pull Request - State: closed - Opened by tsibley about 1 year ago - 3 comments

#72 - Fix CI

Pull Request - State: closed - Opened by tsibley about 1 year ago - 3 comments

#71 - build(deps): bump actions/upload-artifact from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#71 - build(deps): bump actions/upload-artifact from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#70 - build(deps): bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#69 - build(deps): bump docker/login-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#68 - build(deps): bump actions/setup-python from 3 to 5

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies

#67 - build(deps): bump conda-incubator/setup-miniconda from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies

#66 - Allow pathogen-repo-ci to use a local version of Augur

Issue - State: closed - Opened by joverlee521 about 1 year ago - 2 comments

#65 - Nested pathogen-repo-ci

Pull Request - State: closed - Opened by joverlee521 over 1 year ago - 2 comments

#63 - ENH: Allow pathogen-repo-ci to invoke workflow in subfolder

Issue - State: closed - Opened by corneliusroemer over 1 year ago - 2 comments
Labels: enhancement

#62 - Allow `pathogen-repo-ci` to run workflow in subdir via `build-dir` arg

Pull Request - State: closed - Opened by corneliusroemer over 1 year ago - 10 comments

#61 - setup-nextstrain-cli: Remove unnecessary nextstrain update

Pull Request - State: closed - Opened by victorlin over 1 year ago - 1 comment

#60 - Run nextstrain update on conda runtime only

Pull Request - State: closed - Opened by victorlin over 1 year ago - 1 comment

#59 - Draft: Action to wrap and invert exit status of another action

Pull Request - State: closed - Opened by corneliusroemer over 1 year ago - 1 comment

#58 - CI shouldn't fail on expected failure

Issue - State: closed - Opened by corneliusroemer over 1 year ago - 5 comments
Labels: enhancement

#57 - feat(pathogen-repo-ci): allow configuration of workflow root

Pull Request - State: closed - Opened by corneliusroemer over 1 year ago

#56 - ENH(pathogen-repo-ci): Cache "setup-nextstrain" to save 1-2min (>50%)

Issue - State: closed - Opened by corneliusroemer over 1 year ago - 1 comment
Labels: enhancement

#55 - setup-nextstrain-cli: Use a standalone installation instead of Pip/PyPI

Pull Request - State: closed - Opened by tsibley over 1 year ago - 1 comment

#54 - pathogen-repo-build: Wait for AWS Batch jobs to finish

Pull Request - State: closed - Opened by tsibley over 1 year ago - 11 comments

#53 - pathogen-repo-build: Support assuming an AWS role via GitHub Actions' OIDC provider

Pull Request - State: closed - Opened by tsibley over 1 year ago - 4 comments

#52 - Trim CI

Pull Request - State: closed - Opened by joverlee521 over 1 year ago - 1 comment

#51 - pathogen-repo-build: update AWS Batch job id matching

Pull Request - State: closed - Opened by joverlee521 over 1 year ago

#50 - pathogen-repo-build: Display AWS Batch summary even when job was attached

Issue - State: closed - Opened by joverlee521 over 1 year ago - 1 comment
Labels: enhancement

#49 - setup-nextstrain-cli: allow nextstrain update to continue-on-error

Pull Request - State: closed - Opened by joverlee521 over 1 year ago - 6 comments

#48 - Setup nextstrain cli update

Pull Request - State: closed - Opened by joverlee521 over 1 year ago

#47 - Update PR template

Pull Request - State: closed - Opened by victorlin over 1 year ago - 1 comment

#46 - Centralize existing pathogen build workflows

Issue - State: closed - Opened by joverlee521 over 1 year ago - 4 comments
Labels: enhancement

#45 - Copy example data recursively

Pull Request - State: closed - Opened by victorlin over 1 year ago

#44 - Reusable run-build workflow

Pull Request - State: closed - Opened by joverlee521 over 1 year ago - 3 comments

#43 - pathogen-repo-ci: set build matrix to `fail-fast:false`

Pull Request - State: closed - Opened by joverlee521 over 1 year ago

#42 - pathogen-repo-ci: Multi-runtime

Pull Request - State: closed - Opened by tsibley over 1 year ago - 1 comment

#41 - pathogen-repo-ci: Avoid the secret-check step before docker.io login

Pull Request - State: closed - Opened by tsibley over 1 year ago - 1 comment

#40 - pathogen-repo-ci: Support a continue-on-error pass thru

Pull Request - State: closed - Opened by tsibley almost 2 years ago - 3 comments

#39 - Add actions/run-nextstrain-build-on-aws-batch

Pull Request - State: closed - Opened by joverlee521 almost 2 years ago - 5 comments

#38 - pathogen-repo-ci: Log in to docker.io and ghcr.io if possible

Pull Request - State: closed - Opened by tsibley almost 2 years ago - 4 comments

#37 - Shellcheck

Pull Request - State: closed - Opened by tsibley almost 2 years ago - 1 comment

#36 - ENH: Upload resulting auspice.jsons to nextstrain-staging for quicker inspection

Issue - State: open - Opened by corneliusroemer about 2 years ago - 6 comments
Labels: enhancement

#35 - actions/setup-debugger: Interactively inspect and manipulate steps of a workflow job

Pull Request - State: closed - Opened by tsibley about 2 years ago - 2 comments

#34 - actions/setup-ssh: Direct access to runner machines over Tailscale

Pull Request - State: closed - Opened by tsibley about 2 years ago - 3 comments

#33 - sync-rtd-redirects: Skip when `RTD_TOKEN` is empty

Pull Request - State: closed - Opened by victorlin about 2 years ago - 1 comment

#32 - CI: Test docs-ci

Pull Request - State: closed - Opened by victorlin about 2 years ago

#31 - sync-rtd-redirects: Perform dry runs when not on the default branch

Pull Request - State: closed - Opened by tsibley about 2 years ago

#30 - Add our now-common workflow for syncing RTD redirects

Pull Request - State: closed - Opened by tsibley about 2 years ago - 1 comment

#29 - docs-ci: Check external links

Issue - State: closed - Opened by tsibley about 2 years ago - 2 comments
Labels: enhancement, priority: low

#29 - docs-ci: Check external links

Issue - State: closed - Opened by tsibley about 2 years ago - 2 comments
Labels: enhancement, priority: low

#28 - docs-ci: Add pip install option

Pull Request - State: closed - Opened by victorlin about 2 years ago

#27 - Update PR template

Pull Request - State: closed - Opened by victorlin over 2 years ago

#26 - pathogen-repo-ci: Always upload outputs even on failure

Pull Request - State: closed - Opened by tsibley over 2 years ago - 1 comment

#25 - pathogen-repo-ci: Run with `--ambient` in addition to `--docker`

Issue - State: closed - Opened by victorlin over 2 years ago - 8 comments
Labels: enhancement

#24 - Update README

Pull Request - State: closed - Opened by tsibley over 2 years ago