.command.sh - Workdir - NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:SOMATIC_CNV_CALLING:SOMA_CNV_EXPORT_VIEWER (1029_01S)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d5/7dcd9f8036525c9719490172b565a0/.command.sh
Size: 436 bytes
Task: NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:SOMATIC_CNV_CALLING:SOMA_CNV_EXPORT_VIEWER (1029_01S)
Attempt

Content

#!/bin/bash -Ceuo pipefail
python /usr/local/bin/export_viewer.py \
    --probe-agg 1029_01S_probe_agg.tsv.gz \
    --pairs pairs.tsv \
    --segments 1029_01S_segments.tsv \
    --output-dir viewer \
    --specimens-file <(echo "1029_01S") \
    --workers 4

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:SOMATIC_CNV_CALLING:SOMA_CNV_EXPORT_VIEWER":
    soma-cnv: 20260603-050173b
END_VERSIONS