Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Joel gsutil #9052

Draft
wants to merge 2 commits into
base: ah_var_store
Choose a base branch
from
Draft

Joel gsutil #9052

Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
610b1c5
switch back to gsutil cp
jmthibault79 Nov 21, 2024
c5f5f0b
use xargs instead
jmthibault79 Nov 21, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion scripts/variantstore/wdl/GvsExtractCallset.wdl
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -573,7 +573,7 @@ task CreateManifestAndOptionallyCopyOutputs {
if [ -n "$OUTPUT_GCS_DIR" ]; then
# Copy VCFs, indexes and the manifest to the output directory.
echo manifest.txt >> vcf_manifest.txt
cat vcf_manifest.txt | gcloud storage cp -I ${OUTPUT_GCS_DIR}
cat vcf_manifest.txt | xargs -IFILE gsutil cp FILE ${OUTPUT_GCS_DIR}
fi
>>>
output {
Expand Down
Loading