Migrate to native GitHub issue priorities (#8044) by nadove-ucsc · Pull Request #8076 · DataBiosphere/azul

nadove-ucsc · 2026-06-02T19:27:09Z

Linked issues: #8044

Checklist

Author

¹ when the issue title describes a problem, the corresponding PR
title is Fix: followed by the issue title

Author (partiality)

Added p tag to titles of partial commits
This PR is labeled partial _{or completely resolves all linked issues}
This PR partially resolves each of the linked issues _{or does not have the partial label}

Author (reindex)

Added r tag to commit title _{or the changes introduced by this PR will not require reindexing of any deployment}
This PR is labeled reindex:dev _{or the changes introduced by it will not require reindexing of dev}
This PR is labeled reindex:anvildev _{or the changes introduced by it will not require reindexing of anvildev}
This PR is labeled reindex:anvilprod _{or the changes introduced by it will not require reindexing of anvilprod}
This PR is labeled reindex:prod _{or the changes introduced by it will not require reindexing of prod}
This PR is labeled reindex:partial and its description documents the specific reindexing procedure for dev, anvildev, anvilprod and prod _{or requires a full reindex or carries none of the labels reindex:dev, reindex:anvildev, reindex:anvilprod and reindex:prod}

Author (mirror)

This PR is labeled mirror:dev _{or the changes introduced by it will not require mirroring of dev}
This PR is labeled mirror:anvildev _{or the changes introduced by it will not require mirroring of anvildev}
This PR is labeled mirror:anvilprod _{or the changes introduced by it will not require mirroring of anvilprod}
This PR is labeled mirror:prod _{or the changes introduced by it will not require mirroring of prod}
This PR is labeled mirror:partial and its description documents the specific mirroring procedure for dev, anvildev, anvilprod and prod _{or requires a full mirroring or carries none of the labels mirror:dev, mirror:anvildev, mirror:anvilprod and mirror:prod}

Author (API changes)

This PR and its linked issues are labeled API _{or this PR does not modify a REST API}
Added a (A) tag to commit title for backwards (in)compatible changes _{or this PR does not modify a REST API}
Updated REST API version number in app.py _{or this PR does not modify a REST API}

Author (upgrading deployments)

Ran make docker_images.json and committed the resulting changes _{or this PR does not modify azul_docker_images, or any other variables referenced in the definition of that variable}
Documented upgrading of deployments in UPGRADING.rst _{or this PR does not require upgrading deployments}
Added u tag to commit title _{or this PR does not require upgrading deployments}
This PR is labeled upgrade _{or does not require upgrading deployments}
This PR is labeled deploy:shared _{or does not modify docker_images.json, and does not require deploying the shared component for any other reason}
This PR is labeled deploy:gitlab _{or does not require deploying the gitlab component}
This PR is labeled deploy:runner _{or does not require deploying the runner image}

Author (hotfixes)

Added F tag to main commit title _{or this PR does not include permanent fix for a temporary hotfix}
Reverted the temporary hotfixes for any linked issues _{or the none of the stable branches (anvilprod and prod) have temporary hotfixes for any of the issues linked to this PR}

Author (before every review)

Rebased PR branch on develop, squashed fixups from prior reviews
Ran make requirements_update _{or this PR does not modify Dockerfile, environment, requirements*.txt, common.mk, Makefile or environment.boot}
Added R tag to commit title _{or this PR does not modify requirements*.txt}
This PR is labeled reqs _{or does not modify requirements*.txt}
make integration_test passes in personal deployment _{or this PR does not modify functionality that could affect the IT outcome}
PR is awaiting requested review from a peer
Status of PR is Review requested
PR is assigned to only the peer and the author

Peer reviewer (after approval)

Note that after requesting changes, the PR must be assigned to only the author.

Actually approved the PR
PR is not a draft
PR is awaiting requested review from system administrator
Status of PR is Review requested
PR is assigned to only the system administrator and the author

System administrator (after approval)

Actually approved the PR
Labeled linked issues as demo or no demo
Commented on linked issues about demo expectations _{or all linked issues are labeled no demo}
Decided if PR can be labeled no sandbox
A comment to this PR details the completed security design review
PR title is appropriate as title of merge commit
N reviews label is accurate
Status of PR is Approved
PR is assigned to only the operator and the author

Operator

Checked reindex:… labels and r commit title tag
Checked mirror:… labels
Checked that demo expectations are clear _{or all linked issues are labeled no demo}
Squashed PR branch and rebased onto develop
Sanity-checked history
Pushed PR branch to GitHub

Operator (deploy `.shared` and `.gitlab` components)

Ran _select dev.shared && CI_COMMIT_REF_NAME=develop make -C terraform/shared apply_keep_unused _{or this PR is not labeled deploy:shared}
Ran _select dev.gitlab && CI_COMMIT_REF_NAME=develop make -C terraform/gitlab apply _{or this PR is not labeled deploy:gitlab}
Ran _select anvildev.shared && CI_COMMIT_REF_NAME=develop make -C terraform/shared apply_keep_unused _{or this PR is not labeled deploy:shared}
Ran _select anvildev.gitlab && CI_COMMIT_REF_NAME=develop make -C terraform/gitlab apply _{or this PR is not labeled deploy:gitlab}
Checked the items in the next section _{or this PR is labeled deploy:gitlab}
PR is assigned to only the system administrator and the author _{or this PR is not labeled deploy:gitlab}

System administrator (post-deploy of `.gitlab` component)

Background migrations for dev.gitlab are complete _{or this PR is not labeled deploy:gitlab}
Background migrations for anvildev.gitlab are complete _{or this PR is not labeled deploy:gitlab}
PR is assigned to only the operator and the author

Operator (deploy runner image)

Ran _select dev.gitlab && make -C terraform/gitlab/runner _{or this PR is not labeled deploy:runner}
Ran _select anvildev.gitlab && make -C terraform/gitlab/runner _{or this PR is not labeled deploy:runner}

Operator (sandbox build)

Operator (merge the branch)

All status checks passed and the PR is mergeable
The title of the merge commit starts with the title of this PR
Added PR # reference to merge commit title
Collected commit title tags in merge commit title _{but only included p if the PR is also labeled partial}
Pushed merge commit to GitHub
Status of PR is Merged lower
Status of blocked issues is Triage _{or no issues are blocked on the linked issues}

Operator (main build)

Author

Re-ran migration script and validated results
PR is assigned only to operator

Operator (reindex)

Operator (mirroring)

Started mirroring in dev _{or this PR is not labelled mirror:dev}
Started mirroring in anvildev _{or this PR is not labelled mirror:anvildev}
Checked for, triaged and possibly requeued messages in mirror fail queue in dev _{or this PR is not labelled mirror:dev}
Checked for, triaged and possibly requeued messages in mirror fail queue in anvildev _{or this PR is not labelled mirror:anvildev}
Emptied mirror fail queue in dev _{or this PR is not labelled mirror:dev}
Emptied mirror fail queue in anvildev _{or this PR is not labelled mirror:anvildev}

Operator

Propagated the upgrade and API labels to the next promotion PRs _{or this PR carries neither of these labels}
Propagated the deploy:shared, deploy:gitlab, deploy:runner, reindex:partial, reindex:anvilprod, reindex:prod, mirror:partial, mirror:anvilprod and mirror:prod labels to the next promotion PRs _{or this PR carries none of these labels}
Propagated any specific instructions related to the deploy:shared, deploy:gitlab, deploy:runner, reindex:partial, reindex:anvilprod, reindex:prod, mirror:partial, mirror:anvilprod and mirror:prod labels, from the description of this PR to that of the next promotion PRs _{or this PR carries none of these labels}
PR is assigned to no one

Shorthand for review comments

L line is too long
W line wrapping is wrong
Q bad quotes
F other formatting problem

codecov · 2026-06-02T19:42:55Z

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 84.72%. Comparing base (69bc7ef) to head (8cf8581).
⚠️ Report is 3 commits behind head on develop.

Additional details and impacted files

@@           Coverage Diff            @@
##           develop    #8076   +/-   ##
========================================
  Coverage    84.72%   84.72%           
========================================
  Files          165      165           
  Lines        24252    24252           
========================================
  Hits         20547    20547           
  Misses        3705     3705

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coveralls · 2026-06-02T19:43:14Z

coverage: 84.801%. remained the same — issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities into develop

nadove-ucsc · 2026-06-03T19:25:27Z

Tested with

diff --git a/.github/workflows/schedule.py b/.github/workflows/schedule.py
index b93086043..fcd3c3eb9 100644
--- a/.github/workflows/schedule.py
+++ b/.github/workflows/schedule.py
@@ -252,13 +252,9 @@ def main(args):
     now = datetime.now(tz)
     for template in Path('.github/ISSUE_TEMPLATE').glob('*.md'):
         self = IssueTemplate(path=template, dry_run=options.dry_run)
-        match self.is_eligible(now):
-            case None:
-                log.info('Ignoring issue template %s since it defines no schedule.', self.path)
-            case False:
-                log.info('Issue template %s is ineligible', self.path)
-            case True:
-                self.create_issue(now.date())
+        if self.is_eligible(now) is not None:
+            self.create_issue(now.date())
+            break
 
 
 if __name__ == '__main__':
$ GITHUB_REPO=DataBiosphere/azul-private python3 .github/workflows/schedule.py 
2026-06-03 12:23:09,962    INFO azul.github.schedule: Running ['gh', 'issue', 'list', '--repo=DataBiosphere/azul-private', '--search=in:title "Promotion 2026-06-03"', '--json=number', '--limit=10']
2026-06-03 12:23:10,654    INFO azul.github.schedule: Running ['gh', 'api', '--method', 'POST', '/repos/DataBiosphere/azul-private/issues', '-H', 'Accept: application/vnd.github+json', '-H', 'X-GitHub-Api-Version: 2022-11-28', '-f', 'title=Promotion 2026-06-03', '-f', 'body=- [ ] The title of this issue matches `Promotion yyyy-mm-dd`\n- [ ] For `prod`\n  - [ ] System administrator and operator determined the commit to be promoted\n  - [ ] Operator created the promotion PR\n- [ ] For `anvilprod`\n  - [ ] System administrator and operator determined the commit to be promoted\n  - [ ] Operator created the promotion PR\n- [ ] This issue is part of the sprint that includes the date from the issue title\n', '-f', 'type=Chore', '-f', 'labels[]=infra', '-f', 'labels[]=no demo', '-f', 'labels[]=operator']
2026-06-03 12:23:11,537    INFO azul.github.schedule: … created 'https://github.com/DataBiosphere/azul-private/issues/384', verifying labels and assignees …
2026-06-03 12:23:11,537    INFO azul.github.schedule: Successfully created and verified issue #384
2026-06-03 12:23:11,537    INFO azul.github.schedule: Running ['gh', 'api', '/orgs/DataBiosphere/issue-fields', '-H', 'X-GitHub-Api-Version: 2026-03-10']
2026-06-03 12:23:12,017    INFO azul.github.schedule: Running ['gh', 'api', '/repos/DataBiosphere/azul-private']
2026-06-03 12:23:12,612    INFO azul.github.schedule: Running ['gh', 'api', '--method', 'POST', '/repositories/539115215/issues/384/issue-field-values', '-H', 'X-GitHub-Api-Version: 2026-03-10', '--input', '-']
2026-06-03 12:23:13,590    INFO azul.github.schedule: Set native Priority='Medium' on issue #384

https://github.com/DataBiosphere/azul-private/issues/384

achave11-ucsc

Looking good.

The changes, input: bytes | None = None, don't belong in the "Fix inaccurate return type annotation" commit.

Otherwise, OK

achave11-ucsc

Approved ✅

hannes-ucsc

Between you running the migration script and this getting merged, the schedule might have created issues without the new field. Please think the entire migration through and add any checklist items on this PR that might be necessary. I'd like you to take responsibility for the entire migration. Propose demo instructions on the issue.

hannes-ucsc · 2026-06-04T15:46:29Z

Don't make this a drop! commit but add to attic instead. Also move zenhub_to_github.py to attic as well in a separate commit.

#8044 (comment)

PR checklist updated.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

hannes-ucsc · 2026-06-08T16:38:13Z

hannes-ucsc · 2026-06-10T00:43:03Z

Clearing the approved queue in preparation for the higher-priority #7794.

nadove-ucsc self-assigned this Jun 2, 2026

nadove-ucsc linked an issue Jun 2, 2026 that may be closed by this pull request

Migrate to native GitHub issue priorities #8044

Open

nadove-ucsc force-pushed the issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities branch from 04669a6 to 7d6cc31 Compare June 2, 2026 19:31

hannes-ucsc force-pushed the develop branch from 9a2b150 to 7f228e7 Compare June 2, 2026 19:40

nadove-ucsc assigned achave11-ucsc Jun 3, 2026

nadove-ucsc requested a review from achave11-ucsc June 3, 2026 06:44

achave11-ucsc requested changes Jun 4, 2026

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achave11-ucsc removed their assignment Jun 4, 2026

nadove-ucsc force-pushed the issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities branch from 7d6cc31 to c8e5761 Compare June 4, 2026 00:56

nadove-ucsc requested a review from achave11-ucsc June 4, 2026 01:10

nadove-ucsc assigned achave11-ucsc Jun 4, 2026

achave11-ucsc marked this pull request as ready for review June 4, 2026 01:26

achave11-ucsc requested a review from hannes-ucsc as a code owner June 4, 2026 01:26

achave11-ucsc previously approved these changes Jun 4, 2026

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achave11-ucsc assigned hannes-ucsc and unassigned achave11-ucsc Jun 4, 2026

hannes-ucsc requested changes Jun 4, 2026

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hannes-ucsc added the 1 review [process] Lead requested changes once label Jun 4, 2026

hannes-ucsc assigned nadove-ucsc and unassigned nadove-ucsc and hannes-ucsc Jun 4, 2026

nadove-ucsc dismissed achave11-ucsc’s stale review via 75ededd June 4, 2026 23:44

nadove-ucsc force-pushed the issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities branch from c8e5761 to 75ededd Compare June 4, 2026 23:44

nadove-ucsc and others added 4 commits June 4, 2026 16:49

Move Zenhub migration script to attic

5cd1af4

Add script to migrate to native GitHub issue priorities (#8044)

a6df4ec

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Fix inaccurate return type annotation

de24574

Switch scheduled issues to native GitHub priorities (#8044)

8cf8581

nadove-ucsc force-pushed the issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities branch from 75ededd to 8cf8581 Compare June 4, 2026 23:49

nadove-ucsc requested a review from hannes-ucsc June 5, 2026 01:17

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nadove-ucsc assigned dsotirho-ucsc and nadove-ucsc and unassigned nadove-ucsc Jun 9, 2026

hannes-ucsc unassigned dsotirho-ucsc Jun 10, 2026

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Migrate to native GitHub issue priorities (#8044)#8076

Migrate to native GitHub issue priorities (#8044)#8076
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issues/nadove-ucsc/8044-migrate-to-native-gh-issue-priorities

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Checklist

Author

Author (partiality)

Author (reindex)

Author (mirror)

Author (API changes)

Author (upgrading deployments)

Author (hotfixes)

Author (before every review)

Peer reviewer (after approval)

System administrator (after approval)

Operator

Operator (deploy .shared and .gitlab components)

System administrator (post-deploy of .gitlab component)

Operator (deploy runner image)

Operator (sandbox build)

Operator (merge the branch)

Operator (main build)

Author

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hannes-ucsc commented Jun 8, 2026

Security design review

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