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update wdl to get right output from task #77

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merged 3 commits into from
Oct 10, 2024
Merged

update wdl to get right output from task #77

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1ce5904
update wdl to get right output from task
snovod Oct 10, 2024
580c2e5
update rsync
snovod Oct 10, 2024
15dbabc
fix substitution
snovod Oct 10, 2024
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10 changes: 4 additions & 6 deletions wdl/HardCloneWorkspace/HardCloneWorkspace.wdl
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Original file line number Diff line number Diff line change
Expand Up @@ -36,12 +36,10 @@ workflow HardCloneTerraWorkspace {
}

if (rsync_workspace) {
String source_bucket = read_string(HardCloneTerraWorkspaceTask.src_bucket)
String dest_bucket = read_string(HardCloneTerraWorkspaceTask.dest_bucket)
call gcp_utils.GcloudRsync {
input:
source=source_bucket,
destination=dest_bucket
source=HardCloneTerraWorkspaceTask.src_bucket,
destination=HardCloneTerraWorkspaceTask.dest_bucket
}
}
}
Expand Down Expand Up @@ -75,8 +73,8 @@ task HardCloneTerraWorkspaceTask {
>>>

output {
String dest_bucket = "dest_workspace_bucket.txt"
String src_bucket = "source_workspace_bucket.txt"
String dest_bucket = read_string("dest_workspace_bucket.txt")
String src_bucket = read_string("source_workspace_bucket.txt")
}

runtime {
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2 changes: 1 addition & 1 deletion wdl/utils/GcpUtils.wdl
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Expand Up @@ -11,7 +11,7 @@ task GcloudRsync {
# Note that this is a Python regular expression, not a pure wildcard pattern. For example,
# matching a string ending in "abc" is .*abc$ rather than *abc. Also note that the exclude path is relative,
# as opposed to absolute (similar to Linux rsync and tar exclude options).
gcloud storage rsync --recursive ${source} ${destination} ${"--exclude=" + exclude_regex}
gcloud storage rsync --recursive ~{source} ~{destination} ~{"--exclude= " + exclude_regex}
>>>

runtime {
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