ERROR ~ Error executing process > 'NFCORE_VARIANTPRIORITIZATION:VARIANTPRIORITIZATION:PCGR_RUN (ROS-HD827-50ng-Rep1:ROS-HD827-50ng-Rep1)'

Caused by:
  Process `NFCORE_VARIANTPRIORITIZATION:VARIANTPRIORITIZATION:PCGR_RUN (ROS-HD827-50ng-Rep1:ROS-HD827-50ng-Rep1)` terminated with an error exit status (1)


Command executed:

  export XDG_CACHE_HOME=/tmp
  export XDG_DATA_HOME=/tmp
  export QUARTO_PRINT_STACK=true

  mkdir -p ROS-HD827-50ng-Rep1.ROS-HD827-50ng-Rep1

  pcgr \
      --input_vcf ROS-HD827-50ng-Rep1.ROS-HD827-50ng-Rep1.vcf.gz \
      --vep_dir 113_GRCh38 \
      --refdata_dir 20250314 \
      --output_dir ROS-HD827-50ng-Rep1.ROS-HD827-50ng-Rep1 \
      --genome_assembly grch38 \
      --sample_id ROS-HD827-50ng-Rep1.ROS-HD827-50ng-Rep1 \
      --tumor_dp_tag 'TDP' \
      --tumor_af_tag 'TAF' \
      --call_conf_tag 'TAL' \
       \
      --control_af_max 1                              --vep_n_forks 4 --vep_buffer_size 500 --vep_pick_order mane_select,mane_plus_clinical,canonical,biotype,ccds,rank,tsl,appris,length

Command exit status:
  1

Command output:
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR -
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR - Maximum AF/AD control ('control_af_max' = 1.0, 'control_ad_max' = None) requires '--control_af_tag' to be set
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR -

Command error:
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR -
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR - Maximum AF/AD control ('control_af_max' = 1.0, 'control_ad_max' = None) requires '--control_af_tag' to be set
  2026-06-03 13:19:20 - pcgr-validate-arguments-input-a - ERROR -