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Merge master, fix unrelated VDS-making breakage [VS-1777] #5963

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

Merge master, fix unrelated VDS-making breakage [VS-1777] #5963

Triggered via pull request December 5, 2025 23:23
@mcovarrmcovarr
synchronize #9302
vs_1777_build_failure
Status Success
Total duration 43m 51s
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
13m 5s
build and push gatk docker to artifacts
Validate script WDLs using womtools
2m 46s
Validate script WDLs using womtools
Validate generated WDLs using womtools
15m 18s
Validate generated WDLs using womtools
Matrix: wdlTests
Matrix: test
Matrix: testOnDocker
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10 errors
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell
Process completed with exit code 1.
WDL test RUN_CNV_GERMLINE_COHORT_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_20251205-232318-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_20251205-232318-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_20251205-232318-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)
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
sha256:16d47abeed06a22cf8187e06aa8a6c46e66874e9738296fb6e8fb69d10d38bff
test-results-17.0.6+10-cloud
87 KB
sha256:fb85ffa8b2e3c85925729c593bb3d92a0f73806b99fe109edd47f693d7bc21b6
test-results-17.0.6+10-integration
579 KB
sha256:5eb966eae8b99c5f284518a6e04ce47c06874b118fca98616d8abd734bee88b0
test-results-17.0.6+10-unit
5.15 MB
sha256:65c82a22ec4ff8f5641f7d493f23a2041666de216b885440c62890ba1b751be3
test-results-docker-17.0.6+10-conda
59.7 KB
sha256:a962b9369bb5a58c45fb0de3295f0fad419ecf8df43c223f3dd3724eaf12c0a5
test-results-docker-17.0.6+10-integration
582 KB
sha256:b70f975e62ba72186a027b7076e8dd1fc59c08105a897e6c30980045e77b4d8f
test-results-docker-17.0.6+10-unit
5 MB
sha256:f78b56a0a39ed51b2ad3827799c8980e66227824bdece26f8f3f3aa021546ebd
test-results-docker-17.0.6+10-variantcalling
31.8 KB
sha256:6ce5e2c4ee60f17ccf6e8fffa08129a3a45b732ab91e7d02a636aa5b18533a21