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Build and Test GATK 4

Add VEP + LOFTEE (+ GERP + HGNC) to VAT [VS-1520] [VS-1765] [VS-1767] #5982

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Add VEP + LOFTEE (+ GERP + HGNC) to VAT [VS-1520] [VS-1765] [VS-1767]

Add VEP + LOFTEE (+ GERP + HGNC) to VAT [VS-1520] [VS-1765] [VS-1767] #5982

Triggered via pull request December 9, 2025 14:20
@mcovarrmcovarr
synchronize #9299
vs_1520_loftee
Status Success
Total duration 46m 15s
Artifacts 8

gatk-tests.yml

on: pull_request
check if the environment has privileges
3s
check if the environment has privileges
build and push gatk docker to artifacts
13m 45s
build and push gatk docker to artifacts
Validate script WDLs using womtools
2m 47s
Validate script WDLs using womtools
Validate generated WDLs using womtools
14m 53s
Validate generated WDLs using womtools
Matrix: wdlTests
Matrix: test
Matrix: testOnDocker
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8 errors
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell
Process completed with exit code 1.
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The v0 series of google-github-actions/auth is no longer maintained.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
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The v0 series of google-github-actions/auth is no longer maintained.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
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The v0 series of google-github-actions/auth is no longer maintained.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The v0 series of google-github-actions/auth is no longer maintained.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The v0 series of google-github-actions/auth is no longer maintained.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The v0 series of google-github-actions/auth is no longer maintained.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

Artifacts

Produced during runtime
Name Size Digest
gatkDockerImage
2.29 GB
sha256:c9e039fe697e5426142a6622fae4a0bdc8d74529a18e162247f1034e23232cae
test-results-17.0.6+10-cloud
87 KB
sha256:5041fe5e487be6e5a36931951ce45759dd193d67565908e4327caee151df2573
test-results-17.0.6+10-integration
578 KB
sha256:55ea3615b1b2633354d70c714a6aeaeacaa12c5b98ebf50c8445d593164be287
test-results-17.0.6+10-unit
5.15 MB
sha256:be5397d9a68462bae306f0dd5853661930262bffc534ac50d5e39c2362fa7e83
test-results-docker-17.0.6+10-conda
59.4 KB
sha256:9cacf177c47a2f676adf090a0d6b6d5a331c6c06bc698fbc994abef85d15c22e
test-results-docker-17.0.6+10-integration
580 KB
sha256:9c21ba31aafe511a51b2a4d306a1da9fdb5f0eecc6dedc15f79056ed8a6aeea4
test-results-docker-17.0.6+10-unit
5.01 MB
sha256:c999f3d87da1832cfb7538c7385a753c933b0b771c3b428ba6aa7cd41dc4b7ff
test-results-docker-17.0.6+10-variantcalling
31.8 KB
sha256:48e9cde601996b482f8b5fa49f60b8ceaa132bb3b701ccb6586c41d91e5340dd