Commits on May 11, 2023

1. ci: Test pathogen repo CI builds with the final packages …

   [ Commit message based on that of 12000a20 in nextstrain/docker-base.¹
     Code changes also based on that commit, plus subsequent commits.² ]
   
   A useful check for if new packages will break our pathogen builds.
   
   I included all pathogen repos that already use our pathogen-repo-ci
   reusable workflow.  It should be minimal effort to maintain this list
   over time—I expect it to only grow—but perhaps in the future we will
   want to abstract it out into a shared list of known pathogen repos.
   
   I don't like that we have to copy the build-args for a few of the repos
   here since it'll be easy for this copy to diverge from the repo's
   authoritative build-args, but it's necessary for now.  Over time as we
   work towards increased automation of pathogen builds, I think we can get
   rid of this build-args copy by further standardizing how each repo
   configures itself for automation.  For example, instead of specifying
   build-args in a repo's CI workflow, the args for CI could be stored in a
   broader workflow metadata file (e.g. nextstrain-workflow.yaml) read by
   pathogen-repo-ci, or defined by some other convention.
   
   An alternative to directly running pathogen-repo-ci against each repo
   here would be instead triggering the CI workflows themselves within each
   repo.  The downside to that is it would divorce the outcomes of those
   workflows from this one and render them not visible from PRs in this
   repo.  It would also require updates to each repo to support triggering
   and passing in of additional parameters (i.e. for the package).  And
   finally those CI workflows sometimes run other jobs, like linting and
   other integration tests (e.g. with Cram), that aren't always necessary
   to run with a new package.
   
   Related-to: <nextstrain/docker-base#148>
   Related-to: <nextstrain/docker-base#150>
   Related-to: <nextstrain/docker-base#151>
   Related-to: <nextstrain/docker-base#154>
   
   ¹ <nextstrain/docker-base@12000a20>
   ² <nextstrain/docker-base@bc22a0bc>
     <nextstrain/docker-base@0a20a474>
     <nextstrain/docker-base@75254e92>

   

   tsibley committed May 11, 2023
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