source '/cromwell_root/gcs_transfer.sh'




# Localize files from source bucket 'fc-secure-823808d0-5404-49c9-990f-b3d9e353e468' to container parent directory '/cromwell_root/fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2'.
files_to_localize_0975c0de31f2b27d32d48da18407ea32=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/" # container parent directory
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/raw_copy_number.png"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/del_genes.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/del_qplot.png"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/broad_significance_results.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/gisticInputs.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/arraylistfile.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/all_thresholded.by_genes.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/gisticVersion.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/all_lesions.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/all_data_by_genes.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/amp_qplot.png"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/amp_genes.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/broad_values_by_arm.txt"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/report_only_files.zip"
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-tool_gistic2/copy_number_gistic2.zip"
)

localize_files "${files_to_localize_0975c0de31f2b27d32d48da18407ea32[@]}"
       


# Localize files from source bucket 'fc-secure-823808d0-5404-49c9-990f-b3d9e353e468' to container parent directory '/cromwell_root'.
files_to_localize_b595aa4d900edd660f2ffcf1405f94c2=(
  "broad-firecloud-cptac"   # project to use if requester pays
  "3" # max transfer attempts
  "/cromwell_root/" # container parent directory
  "gs://fc-secure-823808d0-5404-49c9-990f-b3d9e353e468/f3dd464d-79fd-48b3-81a3-ed641311fe5a/copy_number_gistic2/b66ac4b3-51b2-4724-8311-445ea38bdee6/call-report_gistic2/script"
)

localize_files "${files_to_localize_b595aa4d900edd660f2ffcf1405f94c2[@]}"
       



# 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/hg19_GENCODE_v18_20140127.mat"
  "gs://broad-institute-gdac/gdc/reference/gistic/SNP6.merged.151117.hg19.CNV.txt"
)

localize_files "${files_to_localize_c84319e4865afa8b55394f549fd3045a[@]}"
       