source '/cromwell_root/gcs_transfer.sh'

timestamped_message 'Localization script execution started...'



# Localize files from source bucket 'fc-1ae64e4d-153a-4446-836a-0ce1c97737d3' to container parent directory '/cromwell_root/fc-1ae64e4d-153a-4446-836a-0ce1c97737d3/dde1b0c6-4363-483d-8d92-657f5e39e93c/mutation_mutsig2cv/6ec6d793-f3a8-4221-a0ab-4927e39f42b9/call-tool_mutsig2cv'.
files_to_localize_96a848c16f2f0c9025cff73fa7f5890d=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/fc-1ae64e4d-153a-4446-836a-0ce1c97737d3/dde1b0c6-4363-483d-8d92-657f5e39e93c/mutation_mutsig2cv/6ec6d793-f3a8-4221-a0ab-4927e39f42b9/call-tool_mutsig2cv/" # container parent directory
  "gs://fc-1ae64e4d-153a-4446-836a-0ce1c97737d3/dde1b0c6-4363-483d-8d92-657f5e39e93c/mutation_mutsig2cv/6ec6d793-f3a8-4221-a0ab-4927e39f42b9/call-tool_mutsig2cv/PanCan.final_analysis_set.maf"
)

localize_files "${files_to_localize_96a848c16f2f0c9025cff73fa7f5890d[@]}"
       


# Localize files from source bucket 'fc-1ae64e4d-153a-4446-836a-0ce1c97737d3' to container parent directory '/cromwell_root'.
files_to_localize_b2a5d7d3d2127fdfa757e8ef86b69ea0=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/" # container parent directory
  "gs://fc-1ae64e4d-153a-4446-836a-0ce1c97737d3/4e680f44-8d47-4ca6-956f-e10cc359c753/mutation_signature_analyzer_workflow/8c4b8968-f4d5-4a54-9bba-dc94d1bf3dad/call-mutation_signature_analyzer/script"
)

localize_files "${files_to_localize_b2a5d7d3d2127fdfa757e8ef86b69ea0[@]}"
       



# Localize files from source bucket 'broad-institute-gdac' to container parent directory '/cromwell_root/broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome'.
files_to_localize_f0ae8412a159fdc5afd6813a2377cc0d=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/" # container parent directory
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr15.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr18.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chrY.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr2.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr5.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr7.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr4.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr19.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr14.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr22.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr16.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr20.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr10.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr1.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr9.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr21.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chrX.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr17.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr6.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr12.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr3.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr8.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr13.txt"
  "gs://broad-institute-gdac/reference/genome/GRCh38.d1.vd1__by_chromosome/chr11.txt"
)

localize_files "${files_to_localize_f0ae8412a159fdc5afd6813a2377cc0d[@]}"
       
timestamped_message 'Localization script execution complete.'