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AI-generated troubleshooting analysis is available in the AI Analysis tab.
Resume
To resume this run, resubmit with same or fixed code. You can also change other parameters but that will affect caching behavior.
-resume 5e05fe9e-3412-4e7a-bb73-d75a2bcec89a -name mimsi-low-input-remaining-20260603-225957
Error Report
Error executing process > 'NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT (1029_0DT-T1-TDNA-1_B23K7YCLT4_1)'
Caused by:
Process `NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT (1029_0DT-T1-TDNA-1_B23K7YCLT4_1)` terminated with an error exit status (1)
Command executed:
bai_mapped_count.py 1029_0DT-T1-TDNA-1_B23K7YCLT4_1.recalibrated.bam.bai > 1029_0DT-T1-TDNA-1_B23K7YCLT4_1.mapped_count.txt
cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:CRAM_FILTER_LOW_READS:SAMTOOLS_IDXSTATS_COUNT":
python: $(python3 --version | sed 's/Python //')
bai_mapped_count: 1.0.0
END_VERSIONS
Command exit status:
1
Command output:
(empty)
Work dir:
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e2/fae3182ee639b7df1ceca214995bd8
Container:
292967571998.dkr.ecr.us-west-2.amazonaws.com/quay/biocontainers/multiqc:1.25.1--pyhdfd78af_0
Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named `.command.sh`
Workflow
- Language / Cluster
- Nextflow / pltf-dev
- Session ID
- 5e05fe9e-3412-4e7a-bb73-d75a2bcec89a
- Work Dir
- s3://natera-rnd-pltf-dev-nextflow-scratch-01/work
- Output Dir
- s3://natera-platform-sandbox/platform-users/mohsen/msi/mimsi_outputs/mimsi_run__20260603-225957
- Submitted By
- mbotlaniesfahani
- Resumed
- No
Cost and Runtime
- Status
- failed
- Cost
- $0.57
- Outputs
- 8 MB
- Started
- Jun 03, 2026 4:01 PM
- Completed
- Jun 03, 2026 4:06 PM
- Duration
- 4m 29s
- Post-workflow Transfer
- 4s
- Exit Status
- 1
- Peak Tasks / CPU / Mem
- 7 / 7 / 14.0 GB