pytest #2
asp8200pytest-workflow.yml
on: push
check-changes
4s
Matrix: pytest
Annotations
6 errors and 40 warnings
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pytest (bases2fastq, docker)
Process completed with exit code 1.
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pytest (bases2fastq, singularity)
Process completed with exit code 1.
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pytest (tiddit/sv, conda)
Process completed with exit code 1.
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pytest (gatk4/postprocessgermlinecnvcalls, singularity)
Process completed with exit code 1.
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pytest (ensemblvep/vep, singularity)
Unhandled exception. System.IO.IOException: No space left on device : '/home/runner/runners/2.307.1/_diag/Worker_20230801-082811-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/2.307.1/_diag/Worker_20230801-082811-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/2.307.1/_diag/Worker_20230801-082811-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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pytest (ensemblvep/vep, singularity)
Process completed with exit code 1.
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pytest (bamtools/stats, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bamtools/split, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bcl2fastq, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bclconvert, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (affy/justrma, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (centrifuge/centrifuge, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bamtools/convert, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bases2fastq, docker)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (fqtk, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bases2fastq, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (ensemblvep/download, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gatk/indelrealigner, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gatk/realignertargetcreator, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gatk/unifiedgenotyper, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (bwa/mem, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (deseq2/differential, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gstama/merge, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (fcs/fcsgx, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (hisat2/align, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (homer/annotatepeaks, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (kraken2/kraken2, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (limma/differential, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (snpeff/download, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (sgdemux, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (samtools/flagstat, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (samtools/idxstats, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (subworkflows/vcf_annotate_snpeff, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (tiddit/sv, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (tiddit/cov, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gatk4/germlinecnvcaller, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (tiddit/sv, conda)
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (ultra/align, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (ultra/index, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (subworkflows/vcf_annotate_ensemblvep, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (untar, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (ultra/pipeline, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (snpeff/snpeff, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (gatk4/postprocessgermlinecnvcalls, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5, actions/upload-artifact@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (subworkflows/vcf_annotate_ensemblvep_snpeff, singularity)
The following actions uses node12 which is deprecated and will be forced to run on node16: eWaterCycle/setup-singularity@v5. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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pytest (ensemblvep/vep, singularity)
You are running out of disk space. The runner will stop working when the machine runs out of disk space. Free space left: 93 MB
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Artifacts
Produced during runtime
| Name | Size | |
|---|---|---|
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logs-conda-
Expired
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1.15 MB |
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logs-docker-
Expired
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158 MB |
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logs-singularity-
Expired
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1.12 GB |
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