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Merge master, fix unrelated VDS-making breakage [VS-1777] #5980

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Merge master, fix unrelated VDS-making breakage [VS-1777]

Merge master, fix unrelated VDS-making breakage [VS-1777] #5980

Triggered via pull request December 9, 2025 11:09
@mcovarrmcovarr
synchronize #9302
vs_1777_build_failure
Status Success
Total duration 45m 50s
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
14m 15s
build and push gatk docker to artifacts
Validate script WDLs using womtools
2m 43s
Validate script WDLs using womtools
Validate generated WDLs using womtools
14m 13s
Validate generated WDLs using womtools
Matrix: wdlTests
Matrix: test
Matrix: testOnDocker
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10 errors
WDL test RUN_CNV_SOMATIC_WDL on cromwell
Process completed with exit code 1.
WDL test RUN_M2_WDL on cromwell
System.IO.IOException: No space left on device : '/home/runner/actions-runner/cached/_diag/Worker_20251209-110943-utc.log' at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset) at System.IO.StreamWriter.Flush(Boolean flushStream, Boolean flushEncoder) at System.Diagnostics.TextWriterTraceListener.Flush() at GitHub.Runner.Common.HostTraceListener.WriteHeader(String source, TraceEventType eventType, Int32 id) at System.Diagnostics.TraceSource.TraceEvent(TraceEventType eventType, Int32 id, String message) at GitHub.Runner.Worker.Worker.RunAsync(String pipeIn, String pipeOut) at GitHub.Runner.Worker.Program.MainAsync(IHostContext context, String[] args) System.IO.IOException: No space left on device : '/home/runner/actions-runner/cached/_diag/Worker_20251209-110943-utc.log' at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset) at System.IO.StreamWriter.Flush(Boolean flushStream, Boolean flushEncoder) at System.Diagnostics.TextWriterTraceListener.Flush() at GitHub.Runner.Common.HostTraceListener.WriteHeader(String source, TraceEventType eventType, Int32 id) at System.Diagnostics.TraceSource.TraceEvent(TraceEventType eventType, Int32 id, String message) at GitHub.Runner.Common.Tracing.Error(Exception exception) at GitHub.Runner.Worker.Program.MainAsync(IHostContext context, String[] args) Unhandled exception. System.IO.IOException: No space left on device : '/home/runner/actions-runner/cached/_diag/Worker_20251209-110943-utc.log' at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset) at System.IO.StreamWriter.Flush(Boolean flushStream, Boolean flushEncoder) at System.Diagnostics.TextWriterTraceListener.Flush() at System.Diagnostics.TraceSource.Flush() at GitHub.Runner.Common.Tracing.Dispose(Boolean disposing) at GitHub.Runner.Common.Tracing.Dispose() at GitHub.Runner.Common.TraceManager.Dispose(Boolean disposing) at GitHub.Runner.Common.TraceManager.Dispose() at GitHub.Runner.Common.HostContext.Dispose(Boolean disposing) at GitHub.Runner.Common.HostContext.Dispose() at GitHub.Runner.Worker.Program.Main(String[] args)
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell
Process completed with exit code 1.
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

Artifacts

Produced during runtime
Name Size Digest
gatkDockerImage
2.29 GB
sha256:91c335e2c66b51363cbe8ee7ea0b79354cc24b4050752b73006ec86b98e797c8
test-results-17.0.6+10-cloud
86.9 KB
sha256:cb2b20631f8d5a11ceccd42393fd816ce04cfd64a29c0a8d15e8a5cc2e875dfa
test-results-17.0.6+10-integration
578 KB
sha256:56d228d36d955e6c933f5e2740aa3445af5d9b561dc8d2d97306d3ca3d8f01fc
test-results-17.0.6+10-unit
5.14 MB
sha256:6deee238402aaa1107a80eda60f6b8aa8764c8b346fb8025ec7f78e5cfdd9896
test-results-docker-17.0.6+10-conda
59.6 KB
sha256:e7b4c501587a5678241ad5ce769182f9300084d5901361a6f1dfa72085c2af4c
test-results-docker-17.0.6+10-integration
582 KB
sha256:2e077ccf6ff546ac6bd79d1f00c7d3243818670aefa3838a76410ba477ecdfef
test-results-docker-17.0.6+10-unit
5.01 MB
sha256:b96ab4a38a3529c15f4174c178511f304fc04139e2d03cb0be6c3049875a502a
test-results-docker-17.0.6+10-variantcalling
31.8 KB
sha256:0bd45247a3fd5a4dd653569de3244b541ecd82003c028defdd447f4c36e4796d