def abort_wids(sids: List[str], wait=True):
cm = ConfigManager(db_path=None)
for sid in sids:
try:
row = cm.get_row_for_submission_id_or_path(sid)
WorkflowManager.mark_aborted(row.execution_dir, row.submission_id)
except Exception as e:
Logger.critical(f"Couldn't abort '{sid}': " + str(e))
raise e
if wait:
Logger.info(
"Waiting until completely aborted. This can take up to a few minutes to complete."
)
for sid in sids:
try:
wm = ConfigManager.get_from_path_or_submission_lazy(
sid, readonly=True)
check_attempts = 0
while not wm.database.get_uncached_status().is_in_final_state(
):
time.sleep(1)
check_attempts += 1
if check_attempts % 5 == 0:
Logger.info(
f"Still waiting for '{sid}' to move to final state"
)
except Exception as e:
Logger.critical(
f"Couldn't watch '{sid}' until aborted: {str(e)}")
Logger.info(f"Jobs {' '.join(sids)} should be completely aborted now")
def abort_wids(wids: List[str]):
for wid in wids:
try:
row = ConfigManager.manager().get_lazy_db_connection().get_by_wid(
wid)
if row:
WorkflowManager.mark_aborted(row.outputdir, row.wid)
else:
WorkflowManager.mark_aborted(wid, None)
except Exception as e:
Logger.critical(f"Couldn't abort '{wid}': " + str(e))
raise e