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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 b61fe3c4-7dd2-4a0e-a8d2-e9734e420db7 -name sleepy_agnesi
Error Report
Error executing process > 'TSO_BWA_MEM (test)'
Caused by:
Process `TSO_BWA_MEM (test)` terminated with an error exit status (1)
Command executed:
set -euo pipefail
RG=$(printf '@RG\tID:%s\tSM:%s\tPL:ILLUMINA\tLB:%s' 'test' 'test' 'test')
bwa-mem2 mem -t 6 -K 50000000 -R "$RG" 'hg38.fa' 'test.1.fastp.fq.gz' 'test.2.fastp.fq.gz' \
| samtools sort -@6 -m 768M --no-PG -o test.sorted.bam -
Command exit status:
1
Command output:
(empty)
Command error:
Command 'ps' required by nextflow to collect task metrics cannot be found
Work dir:
s3://natera-rnd-fsdx-dev-nextflow-scratch-01/work/38/12689b1e39308aada5a22857d2ac37
Container:
644019535899.dkr.ecr.us-west-2.amazonaws.com/lcgp/rmdupes:bwa_mem-0.0.0
Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line
Workflow
- Language / Cluster
- Nextflow / pltf-dev
- Session ID
- b61fe3c4-7dd2-4a0e-a8d2-e9734e420db7
- Source
- /code/workflows/tso_main.nf
- Work Dir
- s3://natera-rnd-fsdx-dev-nextflow-scratch-01/work
- Submitted By
- joanderson
- Resumed
- No
Cost and Runtime
- Status
- failed
- Cost
- $0.02
- Outputs
- 31 MB
- Started
- May 14, 2026 12:39 PM
- Completed
- May 14, 2026 12:46 PM
- Duration
- 7m 2s
- Post-workflow Transfer
- 10s
- Exit Status
- 1
- Peak Tasks / CPU / Mem
- 1 / 6 / 64.0 GB