Tasks
Actions
Resume
To resume this run, resubmit with same or fixed code. You can also change other parameters but that will affect caching behavior.
-resume cf92d434-6c41-4a90-8034-ba50a6dd570c -name wgs-12-4
Error Report
Error executing process > 'DAQ:SAMTOOLS_MERGE (1060_CH-T1-GTDNA-1_WGS)'
Caused by:
Process `DAQ:SAMTOOLS_MERGE (1060_CH-T1-GTDNA-1_WGS)` terminated with an error exit status (143)
Command executed:
samtools \
merge \
--threads 15 \
--write-index \
\
\
1060_CH-T1-GTDNA-1_WGS.bam##idx##1060_CH-T1-GTDNA-1_WGS.bai \
1/1060_CH-T1-GTDNA-1_WGS.bam 2/1060_CH-T1-GTDNA-1_WGS.bam 3/1060_CH-T1-GTDNA-1_WGS.bam 4/1060_CH-T1-GTDNA-1_WGS.bam 5/1060_CH-T1-GTDNA-1_WGS.bam 6/1060_CH-T1-GTDNA-1_WGS.bam 7/1060_CH-T1-GTDNA-1_WGS.bam 8/1060_CH-T1-GTDNA-1_WGS.bam 9/1060_CH-T1-GTDNA-1_WGS.bam 10/1060_CH-T1-GTDNA-1_WGS.bam 11/1060_CH-T1-GTDNA-1_WGS.bam 12/1060_CH-T1-GTDNA-1_WGS.bam 13/1060_CH-T1-GTDNA-1_WGS.bam 14/1060_CH-T1-GTDNA-1_WGS.bam 15/1060_CH-T1-GTDNA-1_WGS.bam 16/1060_CH-T1-GTDNA-1_WGS.bam 17/1060_CH-T1-GTDNA-1_WGS.bam 18/1060_CH-T1-GTDNA-1_WGS.bam 19/1060_CH-T1-GTDNA-1_WGS.bam 20/1060_CH-T1-GTDNA-1_WGS.bam 21/1060_CH-T1-GTDNA-1_WGS.bam 22/1060_CH-T1-GTDNA-1_WGS.bam 23/1060_CH-T1-GTDNA-1_WGS.bam 24/1060_CH-T1-GTDNA-1_WGS.bam 25/1060_CH-T1-GTDNA-1_WGS.bam 26/1060_CH-T1-GTDNA-1_WGS.bam 27/1060_CH-T1-GTDNA-1_WGS.bam 28/1060_CH-T1-GTDNA-1_WGS.bam 29/1060_CH-T1-GTDNA-1_WGS.bam 30/1060_CH-T1-GTDNA-1_WGS.bam 31/1060_CH-T1-GTDNA-1_WGS.bam 32/1060_CH-T1-GTDNA-1_WGS.bam 33/1060_CH-T1-GTDNA-1_WGS.bam 34/1060_CH-T1-GTDNA-1_WGS.bam 35/1060_CH-T1-GTDNA-1_WGS.bam 36/1060_CH-T1-GTDNA-1_WGS.bam 37/1060_CH-T1-GTDNA-1_WGS.bam 38/1060_CH-T1-GTDNA-1_WGS.bam 39/1060_CH-T1-GTDNA-1_WGS.bam 40/1060_CH-T1-GTDNA-1_WGS.bam
# Touch index to ensure timestamp is newer than aligned file
touch 1060_CH-T1-GTDNA-1_WGS.bai
cat <<-END_VERSIONS > versions.yml
"DAQ:SAMTOOLS_MERGE":
samtools: $(echo $(samtools --version 2>&1) | sed 's/^.*samtools //; s/Using.*$//')
END_VERSIONS
Command exit status:
143
Command output:
(empty)
Work dir:
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/2dc1d1314d7bfb3d0ff1378931aa5d
Container:
292967571998.dkr.ecr.us-west-2.amazonaws.com/daq/samtools_merge:1.23
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
- cf92d434-6c41-4a90-8034-ba50a6dd570c
- Source
- /app/main.nf
- Work Dir
- s3://natera-rnd-pltf-dev-nextflow-scratch-01/work
- Output Dir
- Deleted on 2026-05-29 12:04 PM. List of old outputs
- Submitted By
- abshah
- Resumed
- Yes
Cost and Runtime
- Status
- failed
- Outputs
- Deleted
- Started
- Jan 07, 2026 3:18 PM
- Completed
- Jan 07, 2026 8:25 PM
- Duration
- 5h 6m
- Post-workflow Transfer
- 5s
- Exit Status
- 143
- Peak Tasks / CPU / Mem
- 19 / 330 / 2.9 TB