Error executing process > 'VARIANT_COMPARISON_TSO500:EXTRACT_VARIANT_TABLE_TRUTH (1241_J22)'

Caused by:
  Process `VARIANT_COMPARISON_TSO500:EXTRACT_VARIANT_TABLE_TRUTH (1241_J22)` terminated with an error exit status (1)


Command executed:

  extract_variant_table.py \
      --vcf 1241_J22.norm.vcf.gz \
      --mode truth \
      --specimen-id "1241_J22" \
      --sample-id "1241_J22" \
      --hotspot-tsv hotspot_definitions.tsv \
      --ref-fasta Homo_sapiens_assembly38.fasta \
      --bed-exome xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38.bed \
      --bed-boosted altera_v3_targets_coding_postQC_hg38.bed \
      --bed-truth-panel TruSight_Oncology_500_Manifest_hg38.st.mrg.bed \
      --blacklist-bed pepe_blacklist_sorted_hg38.bed \
      --pon-vcf pon_tnseq_42_curated_v4.vcf.gz \
      --pot-vcf aih_tumor_1577_pot_1pct_artifacts_only.vcf.gz \
      --output 1241_J22.variants.tsv
  
  cat <<-END_VERSIONS > versions.yml
  "VARIANT_COMPARISON_TSO500:EXTRACT_VARIANT_TABLE_TRUTH":
      python: $(python --version 2>&1 | sed 's/Python //')
      pysam: $(python -c "import pysam; print(pysam.__version__)")
  END_VERSIONS

Command exit status:
  1

Command output:
  (empty)

Command error:
  Loading hotspot definitions from hotspot_definitions.tsv
  Traceback (most recent call last):
    File "/tmp/nxf.VBZtOwfMkK/nextflow-bin/extract_variant_table.py", line 412, in <module>
      main()
    File "/tmp/nxf.VBZtOwfMkK/nextflow-bin/extract_variant_table.py", line 373, in main
      hotspots = load_hotspots(args.hotspot_tsv)
    File "/tmp/nxf.VBZtOwfMkK/nextflow-bin/extract_variant_table.py", line 103, in load_hotspots
      pos = int(row["pos"])
  KeyError: 'pos'

Work dir:
  s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/4c4db3631e56009c6c6175bc5259ea

Container:
  292967571998.dkr.ecr.us-west-2.amazonaws.com/community.wave.seqera.io/library/pybedlite_pysam_pip_attrs:c08828fc412b767f

Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`