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@kathy-t kathy-t commented May 8, 2025

Description
Bumps the snakemake plugin version to 0.0.5 to include the changes from dockstore/snakemake-language-interface#4

Review Instructions
See dockstore/snakemake-language-interface#4

Issue
https://ucsc-cgl.atlassian.net/browse/SEAB-7142

Security and Privacy

If there are any concerns that require extra attention from the security team, highlight them here and check the box when complete.

  • Security and Privacy assessed

e.g. Does this change...

  • Any user data we collect, or data location?
  • Access control, authentication or authorization?
  • Encryption features?

Please make sure that you've checked the following before submitting your pull request. Thanks!

  • Check that you pass the basic style checks and unit tests by running mvn clean install
  • Ensure that the PR targets the correct branch. Check the milestone or fix version of the ticket.
  • Follow the existing JPA patterns for queries, using named parameters, to avoid SQL injection
  • If you are changing dependencies, check the Snyk status check or the dashboard to ensure you are not introducing new high/critical vulnerabilities
  • Assume that inputs to the API can be malicious, and sanitize and/or check for Denial of Service type values, e.g., massive sizes
  • Do not serve user-uploaded binary images through the Dockstore API
  • Ensure that endpoints that only allow privileged access enforce that with the @RolesAllowed annotation
  • Do not create cookies, although this may change in the future
  • If this PR is for a user-facing feature, create and link a documentation ticket for this feature (usually in the same milestone as the linked issue). Style points if you create a documentation PR directly and link that instead.

@kathy-t kathy-t requested review from denis-yuen and svonworl May 8, 2025 20:48
@kathy-t kathy-t self-assigned this May 8, 2025
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codecov bot commented May 8, 2025

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 74.18%. Comparing base (2e56ee8) to head (e7581de).
Report is 1 commits behind head on release/1.17.0.

Additional details and impacted files
@@                 Coverage Diff                  @@
##             release/1.17.0    #6109      +/-   ##
====================================================
+ Coverage             72.92%   74.18%   +1.25%     
- Complexity             5596     5660      +64     
====================================================
  Files                   389      389              
  Lines                 20331    20331              
  Branches               2100     2100              
====================================================
+ Hits                  14826    15082     +256     
+ Misses                 4511     4247     -264     
- Partials                994     1002       +8     
Flag Coverage Δ
bitbuckettests 25.94% <ø> (?)
hoverflytests 27.62% <ø> (ø)
integrationtests 56.08% <ø> (ø)
languageparsingtests 10.82% <ø> (ø)
localstacktests 21.34% <ø> (ø)
regressionintegrationtests ?
toolintegrationtests 29.90% <ø> (ø)
unit-tests_and_non-confidential-tests 26.31% <ø> (ø)
workflowintegrationtests 37.36% <ø> (ø)

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@sonarqubecloud
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sonarqubecloud bot commented May 8, 2025

@kathy-t kathy-t merged commit ebd51da into release/1.17.0 May 9, 2025
23 of 24 checks passed
@kathy-t kathy-t deleted the update-snakemake-version branch May 9, 2025 14:05
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4 participants