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Resolved issue: gatk-launch appends as needed to GATK_GCS_STAGING #1338 #5452

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merged 2 commits into from
Nov 29, 2018
Merged

Resolved issue: gatk-launch appends as needed to GATK_GCS_STAGING #1338 #5452

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d720294
Resolved the issue of adding gs:// to the beginning and / to the end …
MartonKN Nov 27, 2018
881c777
Changed a line of code in gatk to a better style (as suggested by Dav…
MartonKN Nov 29, 2018
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7 changes: 7 additions & 0 deletions gatk
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Original file line number Diff line number Diff line change
Expand Up @@ -283,6 +283,13 @@ def md5(file):

def cacheJarOnGCS(jar, dryRun):
staging = os.environ.get("GATK_GCS_STAGING")

if staging is not None:
staging = staging.strip('/')
staging = staging + '/'
if not staging.startswith("gs://"):
staging = "gs://" + staging

if dryRun is True:
return jar
elif staging is None:
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