Error executing process > 'SEQTOOL (NTC_0001_0001_23FC2GLT4_s48)'

Caused by:
  Process `SEQTOOL (NTC_0001_0001_23FC2GLT4_s48)` terminated with an error exit status (1)


Command executed:

  # Matplotlib cache dir must be writable; default location may not be
  export MPLCONFIGDIR=/tmp/matplotlib
  
  # CGP seqtool requires conda activation
  source /root/.bashrc
  conda activate seqtool
  
  all_qc \
      -bam NTC_0001_0001_23FC2GLT4_s48.md.bam \
      -reference Homo_sapiens_assembly38.fasta \
      -beds altera_v2_targets_effective_coding_hg38.bed altera_v2_targets_effective_noncoding_hg38.bed xgen-exome-hyb-panel-v2-targets-hg38_minus_altera_v2.bed altera_v2_targets_coding_hg38.bed altera_v2_targets_noncoding_hg38.bed altera_v2_probes_noncoding_postQC_hg38.bed altera_v2_probes_coding_postQC_hg38.bed \
      -dbsnp_bed dbsnp138_hg38_common.bed \
      -dbsnp_vcf Homo_sapiens_assembly38.dbsnp138.vcf.gz \
      -contamination_bed dbsnp_hg38_contam_sites.bed \
      -output_folder qc \
      -threads 31 \
  
  
  merge_qc -folders qc/* -output qc/NTC_0001_0001_23FC2GLT4_s48_full_basic_stats.tsv
  
  head -n1 qc/NTC_0001_0001_23FC2GLT4_s48_full_basic_stats.tsv > qc/NTC_0001_0001_23FC2GLT4_s48_basic_stats.tsv
  grep -e "$(basename altera_v2_targets_effective_coding_hg38.bed)" qc/NTC_0001_0001_23FC2GLT4_s48_full_basic_stats.tsv >> qc/NTC_0001_0001_23FC2GLT4_s48_basic_stats.tsv
  
  cat <<-END_VERSIONS > versions.yml
  "SEQTOOL":
      seqtool: 1.5.1
  END_VERSIONS

Command exit status:
  1

Command output:
  (empty)

Command error:
  .command.sh: line 6: /root/.bashrc: Permission denied

Work dir:
  s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/5a6bff8c2bf58d05c99e2332ddeef4

Container:
  901094524821.dkr.ecr.us-west-2.amazonaws.com/cgp-seqtool:ab533dce51f838a1928f3884514e5c520dd77641a2137cd12ae18e89edbd8938

Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`