diff options
Diffstat (limited to 'scripts/cleanup.py')
| -rw-r--r-- | scripts/cleanup.py | 22 |
1 files changed, 20 insertions, 2 deletions
diff --git a/scripts/cleanup.py b/scripts/cleanup.py index f4bd0b4..6a82659 100644 --- a/scripts/cleanup.py +++ b/scripts/cleanup.py @@ -3,18 +3,36 @@ import arvados.util api = arvados.api() -patterns = [ +delete_patterns = [ "%missing%`collection_location`%", "%missing%`technology`%", "%missing%`host_species`%", "%QC fail: alignment%", "%does not look like a valid URI%", + "%Duplicate of%" ] -for p in patterns: +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() |