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import arvados
import arvados.util
api = arvados.api()
delete_patterns = [
"%missing%`collection_location`%",
"%missing%`technology`%",
"%missing%`host_species`%",
"%QC fail: alignment%",
"%does not look like a valid URI%",
"%Duplicate of%"
]
revalidate_patterns = [
"%missing%`license`%"
]
for p in delete_patterns:
c = arvados.util.list_all(api.collections().list, filters=[
["owner_uuid", "=", "lugli-j7d0g-n5clictpuvwk8aa"],
["properties.errors", "like", p]])
for i in c:
print("trashing %s %s" % (i["uuid"], i["properties"].get("sequence_label")))
api.collections().delete(uuid=i["uuid"]).execute()
for p in revalidate_patterns:
c = arvados.util.list_all(api.collections().list, filters=[
["owner_uuid", "=", "lugli-j7d0g-n5clictpuvwk8aa"],
["properties.errors", "like", p]])
for i in c:
print("clearing status %s %s" % (i["uuid"], i["properties"].get("sequence_label")))
pr = i["properties"]
if "status" in pr:
del pr["status"]
if "errors" in pr:
del pr["errors"]
api.collections().update(uuid=i["uuid"], body={"properties": pr}).execute()
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