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@dsotirho-ucsc dsotirho-ucsc commented Oct 21, 2025

Linked issues: #7469

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  • PR is assigned to the author
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  • PR is a draft
  • Target branch is develop
  • Name of PR branch matches issues/<GitHub handle of author>/<issue#>-<slug>
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  • Status of linked issues is In progress
  • PR description links to linked issues
  • PR title matches1 that of a linked issue or comment in PR explains why they're different
  • PR title references all linked issues
  • For each linked issue, there is at least one commit whose title references that issue

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
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Author (reindex)

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  • This PR is labeled reindex:dev or the changes introduced by it will not require reindexing of dev
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Author (API changes)

  • This PR and its linked issues are labeled API or this PR does not modify a REST API
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  • 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
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Note that when requesting changes, the PR must be assigned back to the author.

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  • Actually approved the PR
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  • Commented on linked issues about demo expectations or all linked issues are labeled no demo
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Operator

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  • 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
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  • Background migrations for dev.gitlab are complete or this PR is not labeled deploy:gitlab
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Operator (deploy runner image)

  • Ran _select dev.gitlab && make -C terraform/gitlab/runner or this PR is not labeled deploy:runner
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Operator (sandbox build)

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  • Checked for failures in anvilbox or this PR is not labeled reindex:anvildev

Operator (merge the branch)

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Operator (main build)

  • Pushed merge commit to GitLab dev
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  • Build passes on GitLab dev
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  • Build passes on GitLab anvildev
  • Reviewed build logs for anomalies on GitLab anvildev
  • Ran _select dev.shared && make -C terraform/shared apply or this PR is not labeled deploy:shared
  • Ran _select anvildev.shared && make -C terraform/shared apply or this PR is not labeled deploy:shared
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  • Status of linked issues is Lower, or Triage, if PR is partial

Operator (reindex)

  • Deindexed all unreferenced catalogs in dev or this PR is neither labeled reindex:partial nor reindex:dev
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  • Deindexed specific sources in dev or this PR is neither labeled reindex:partial nor reindex:dev
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  • Indexed specific sources in anvildev or this PR is neither labeled reindex:partial nor reindex:anvildev
  • Started reindex in dev or this PR does not require reindexing dev
  • Started reindex in anvildev or this PR does not require reindexing anvildev
  • Checked for, triaged and possibly requeued messages in both fail queues in dev or this PR does not require reindexing dev
  • Checked for, triaged and possibly requeued messages in both fail queues in anvildev or this PR does not require reindexing anvildev
  • Emptied fail queues in dev or this PR does not require reindexing dev
  • Emptied fail queues in anvildev or this PR does not require reindexing anvildev
  • Restarted the Data Browser pipeline for the ucsc/hca/dev branch on GitLab in dev or this PR does not require reindexing dev
  • Restarted the Data Browser pipeline for the ucsc/lungmap/dev branch on GitLab in dev or this PR does not require reindexing dev
  • Restarted deploy_browser job in the GitLab pipeline for this PR in dev or this PR does not require reindexing dev
  • Restarted the Data Browser pipeline for the ucsc/anvil/anvildev branch on GitLab in anvildev or this PR does not require reindexing anvildev
  • Restarted deploy_browser job in the GitLab pipeline for this PR in anvildev or this PR does not require reindexing anvildev

Operator (mirroring)

  • Started mirroring in dev or this PR does not require mirroring dev
  • Started mirroring in anvildev or this PR does not require mirroring anvildev
  • Checked for, triaged and possibly requeued messages in mirror fail queue in dev or this PR does not require mirroring dev
  • Checked for, triaged and possibly requeued messages in mirror fail queue in anvildev or this PR does not require mirroring anvildev
  • Emptied mirror fail queue in dev or this PR does not require mirroring dev
  • Emptied mirror fail queue in anvildev or this PR does not require mirroring anvildev

Operator

  • Propagated the deploy:shared, deploy:gitlab, deploy:runner, API, reindex:partial, reindex:anvilprod and reindex: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, API, reindex:partial, reindex:anvilprod and reindex: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

@dsotirho-ucsc dsotirho-ucsc self-assigned this Oct 21, 2025
@dsotirho-ucsc dsotirho-ucsc linked an issue Oct 21, 2025 that may be closed by this pull request
@dsotirho-ucsc dsotirho-ucsc added the API API change affecting callers label Oct 21, 2025
@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/7469-document-429-response branch 3 times, most recently from 1cab2a2 to 5d896f4 Compare October 21, 2025 17:54
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coveralls commented Oct 21, 2025

Coverage Status

coverage: 85.579% (+0.001%) from 85.578%
when pulling 5437fe5 on issues/dsotirho-ucsc/7469-document-429-response
into 6c0ff8d on develop.

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codecov bot commented Oct 21, 2025

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 85.36%. Comparing base (6c0ff8d) to head (5437fe5).

Additional details and impacted files
@@           Coverage Diff            @@
##           develop    #7509   +/-   ##
========================================
  Coverage    85.36%   85.36%           
========================================
  Files          156      156           
  Lines        22484    22486    +2     
========================================
+ Hits         19193    19195    +2     
  Misses        3291     3291           

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

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@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/7469-document-429-response branch 3 times, most recently from d0bd305 to 0960906 Compare October 22, 2025 17:43
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7509_IT_2025-10-22.txt

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Looks good so far, just eliminate the redundancy.

Comment on lines 861 to 863
When handling this response, clients should wait the number of
seconds specified in the `Retry-After` header and then retry the
request.
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Suggested change
When handling this response, clients should wait the number of
seconds specified in the `Retry-After` header and then retry the
request.
When handling this response, clients should honor the `Retry-After` header.

Implies the waiting to retry.

@achave11-ucsc achave11-ucsc removed their assignment Oct 23, 2025
@dsotirho-ucsc dsotirho-ucsc self-assigned this Oct 24, 2025
@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/7469-document-429-response branch from 0960906 to 4c6509f Compare October 24, 2025 22:07
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7509_IT_2025-10-24.txt

achave11-ucsc
achave11-ucsc previously approved these changes Oct 27, 2025
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Approved ✅

@achave11-ucsc
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@dsotirho-ucsc, don't forget unassigning yourself when requesting review and only assigning the PR to the reviewer.
Screenshot 2025-10-27 at 08 51 03

@achave11-ucsc achave11-ucsc marked this pull request as ready for review October 27, 2025 15:53
def default_specs(self):
retry_after = format_description('''
When handling this response, clients should honor the `Retry-After`
header.
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Suggested change
header.
header by waiting the specified number of second before retrying the request.

self.assertIn('Request timed out', description)
for code, message in [
('429', 'Too many requests'),
('504', 'Request timed out'),
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Suggested change
('504', 'Request timed out'),
('504', 'Gateway Timeout'),

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I'm not sure about the capitalization. Be consistent with precedent in this module.

@hannes-ucsc hannes-ucsc added the 0 reviews [process] Lead didn't request any changes label Oct 27, 2025
@dsotirho-ucsc dsotirho-ucsc force-pushed the issues/dsotirho-ucsc/7469-document-429-response branch from 4c6509f to 5437fe5 Compare October 28, 2025 16:19
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7509_IT_2025-10-28.txt

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Let's add 500 and 502 without retry.

def default_specs(self):
retry_after = format_description('''
When handling this response, clients should honor the `Retry-After`
header by waiting the specified number of second before retrying the
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Suggested change
header by waiting the specified number of second before retrying the
header by waiting the specified number of seconds before retrying the

@hannes-ucsc hannes-ucsc added 1 review [process] Lead requested changes once and removed 0 reviews [process] Lead didn't request any changes labels Oct 29, 2025
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OpenAPI spec does not document 429 responses

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