source '/cromwell_root/gcs_transfer.sh'




# Localize files from source bucket 'broad-institute-gdac' to container parent directory '/cromwell_root/broad-institute-gdac/gdc/reference/gistic'.
files_to_localize_c84319e4865afa8b55394f549fd3045a=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/broad-institute-gdac/gdc/reference/gistic/" # container parent directory
  "gs://broad-institute-gdac/gdc/reference/gistic/gistic2.refgene.hg38.UCSC.add_miR.160920.mat"
  "gs://broad-institute-gdac/gdc/reference/gistic/hg38_GDC_SNP6_CNV_list.161107.txt"
)

localize_files "${files_to_localize_c84319e4865afa8b55394f549fd3045a[@]}"
       



# Localize files from source bucket 'fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55' to container parent directory '/cromwell_root'.
files_to_localize_3592a4e6b1e6ebcd7c1e0307b7b5a1cf=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/" # container parent directory
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-report_gistic2/script"
)

localize_files "${files_to_localize_3592a4e6b1e6ebcd7c1e0307b7b5a1cf[@]}"
       


# Localize files from source bucket 'fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55' to container parent directory '/cromwell_root/fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2'.
files_to_localize_0a3833dc2bc945c39ad51556b682d94d=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/" # container parent directory
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/gisticInputs.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/amp_genes.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/copy_number_gistic2.zip"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/report_only_files.zip"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/all_data_by_genes.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/del_qplot.png"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/gisticVersion.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/broad_significance_results.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/del_genes.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/arraylistfile.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/all_thresholded.by_genes.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/amp_qplot.png"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/all_lesions.txt"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/raw_copy_number.png"
  "gs://fc-fa05c490-b7c1-4ddd-ba57-cfae0646dc55/f19ebea7-6a19-4145-9d92-394ee3746e81/copy_number_gistic2/19bc3147-13da-46ef-a97c-14ad29d080bc/call-tool_gistic2/broad_values_by_arm.txt"
)

localize_files "${files_to_localize_0a3833dc2bc945c39ad51556b682d94d[@]}"
       