Fixed support for newer Gencode GTF versions #2689
jamesemery
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gatk-tests.yml
on: pull_request
check if the environment has privileges
1s
build and push gatk docker to artifacts
28m 25s
Validate script WDLs using womtools
1m 59s
Validate generated WDLs using womtools
14m 7s
Matrix: wdlTests
Matrix: test
Matrix: testOnDocker
Annotations
1 error and 1 warning
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Java 17.0.6+10 test on docker variantcalling
Unhandled exception. System.IO.IOException: No space left on device : '/home/runner/runners/2.305.0/_diag/Worker_20230627-185219-utc.log'
at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset)
at System.IO.Strategies.BufferedFileStreamStrategy.FlushWrite()
at System.IO.StreamWriter.Flush(Boolean flushStream, Boolean flushEncoder)
at System.Diagnostics.TextWriterTraceListener.Flush()
at System.Diagnostics.TraceSource.Flush()
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)
System.IO.IOException: No space left on device : '/home/runner/runners/2.305.0/_diag/Worker_20230627-185219-utc.log'
at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset)
at System.IO.Strategies.BufferedFileStreamStrategy.FlushWrite()
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 GitHub.Runner.Common.HostTraceListener.TraceEvent(TraceEventCache eventCache, String source, TraceEventType eventType, Int32 id, String message)
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/runners/2.305.0/_diag/Worker_20230627-185219-utc.log'
at System.IO.RandomAccess.WriteAtOffset(SafeFileHandle handle, ReadOnlySpan`1 buffer, Int64 fileOffset)
at System.IO.Strategies.BufferedFileStreamStrategy.FlushWrite()
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 GitHub.Runner.Common.HostTraceListener.TraceEvent(TraceEventCache eventCache, String source, TraceEventType eventType, Int32 id, String message)
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)
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Java 17.0.6+10 test on docker variantcalling
You are running out of disk space. The runner will stop working when the machine runs out of disk space. Free space left: 85 MB
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Artifacts
Produced during runtime
| Name | Size | |
|---|---|---|
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gatkDockerImage
Expired
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2.07 GB |
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test-results-17.0.6+10-cloud
Expired
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331 KB |
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test-results-17.0.6+10-integration
Expired
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4.34 MB |
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test-results-17.0.6+10-unit
Expired
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155 MB |
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test-results-docker-17.0.6+10-conda
Expired
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288 KB |
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test-results-docker-17.0.6+10-integration
Expired
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4.26 MB |
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test-results-docker-17.0.6+10-unit
Expired
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154 MB |
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