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VS-1754. Find and fix another bug #5886

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VS-1754. Find and fix another bug

VS-1754. Find and fix another bug #5886

Triggered via pull request October 16, 2025 20:25
@gbggrantgbggrant
opened #9285
gg_VS-1754_FixAnotherBugInClinvarSignificance
Status Success
Total duration 46m 58s
Artifacts 8

gatk-tests.yml

on: pull_request
check if the environment has privileges
2s
check if the environment has privileges
build and push gatk docker to artifacts
15m 1s
build and push gatk docker to artifacts
Validate script WDLs using womtools
11m 32s
Validate script WDLs using womtools
Validate generated WDLs using womtools
16m 10s
Validate generated WDLs using womtools
Matrix: wdlTests
Matrix: test
Matrix: testOnDocker
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Annotations

7 errors and 5 warnings
cloud build and test Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
unit build and test Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
integration build and test Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
unit test on docker Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
conda test on docker Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
variantcalling test on docker Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
integration test on docker Java 17.0.6+10
The v0 series of google-github-actions/auth is no longer maintained. It will not receive updates, improvements, or security patches. Please upgrade to the latest supported versions: https://github.com/google-github-actions/auth
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell
Error: Path Validation Error: Path(s) specified in the action for caching do(es) not exist, hence no cache is being saved.
WDL test RUN_M2_WDL on cromwell
Error: Path Validation Error: Path(s) specified in the action for caching do(es) not exist, hence no cache is being saved.
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell
Error: Path Validation Error: Path(s) specified in the action for caching do(es) not exist, hence no cache is being saved.
WDL test RUN_CNV_SOMATIC_WDL on cromwell
Error: Path Validation Error: Path(s) specified in the action for caching do(es) not exist, hence no cache is being saved.
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell
Error: Path Validation Error: Path(s) specified in the action for caching do(es) not exist, hence no cache is being saved.

Artifacts

Produced during runtime
Name Size Digest
gatkDockerImage
2.29 GB
sha256:fb89d927db0cf4b3057d93a1856609d057f8fe08dfb49f3057fd42812caab517
test-results-17.0.6+10-cloud
86.9 KB
sha256:9ea41f45eb0e4377c3c948a5c12b7e1d7b1af8ac29f57e9740c28ff9eb4572ee
test-results-17.0.6+10-integration
578 KB
sha256:e6532289327f655d99e16ebe5042ea94284e4468ca0569e69a03363416abcc4d
test-results-17.0.6+10-unit
5.15 MB
sha256:b43621c9322ff7923bfbd8527c8bd9b7e4b581aae1cce43540e8f3ab5215cdde
test-results-docker-17.0.6+10-conda
59.6 KB
sha256:645aef57e3a85b3077c8e25e3567681eea315130fc2b16eff98d0ed6060b6f46
test-results-docker-17.0.6+10-integration
579 KB
sha256:a8aa6d3afa3fc1505d1c9696cb269f6c8d3fd48961ad260be1f2579ff427f505
test-results-docker-17.0.6+10-unit
5.01 MB
sha256:8d5b87ed42369e36a56d7d9736837c867ab20ffaec629e71e17594b331cba44a
test-results-docker-17.0.6+10-variantcalling
31.8 KB
sha256:30058f39c4a2b228bd1a9e8700851a0a85fb60b77ff0a917ac31b6aefaa4f860