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get_execution_status.py
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get_execution_status.py
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import asyncio
import json
import argparse
from datetime import datetime
from pathlib import Path
from typing import Dict
from aiohttp import ClientSession
from tqdm import tqdm
async def get_status(
workflow_id: str, session: ClientSession
) -> Dict[str, Dict[str, str]]:
"""
This function gets the status of a workflow.
:param workflow_id: The workflow ID
:param session: The aiohttp session
:return:
"""
res = await session.get(
f"http://localhost:8000/api/workflows/v1/query",
params={"id": workflow_id, "additionalQueryResultFields": "labels"},
)
res_json = await res.json()
# get the status of the workflow
wf_metadata = res_json["results"][0]
status = wf_metadata["status"]
# and the label of the workflow (the submitted JSON filename or other custom label)
labels = wf_metadata.get("labels", {})
label = labels.get("caper-str-label", None)
return {workflow_id: {"status": status, "label": label}}
async def get_metadata(workflow_id, session: ClientSession):
res = await session.get(
f"http://localhost:8000/api/workflows/v1/{workflow_id}/metadata"
)
res_json = await res.json()
calls = res_json["calls"]
calls_dict = {}
# iterate through the various call attempts
for call_name, call_attempts in calls.items():
attempts = (0, 1)
# find the latest attempt and its index (sometimes the latest attempt comes out
# of order, although this is rare, we need to account for it)
for i, attempt in enumerate(call_attempts):
# compare the latest attempt to the current attempt
is_latest = max(attempts[1], attempt["attempt"])
if is_latest:
attempts = (i, attempt["attempt"])
# set the latest attempt
latest_task_attempt = call_attempts[attempts[0]]
# get the status of the latest attempt
task_status = latest_task_attempt["executionStatus"]
# we only want to fetch the rest of the metadata if the task is running
if task_status != "Done":
task_dict = {
"attempt": latest_task_attempt["attempt"],
"cromwell_status": task_status,
"backend_status": latest_task_attempt.get("backendStatus"),
"logs": latest_task_attempt.get("backendLogs", {}).get("log", None),
}
task_execution_events = latest_task_attempt.get("executionEvents", None)
if task_execution_events:
task_dict["execution_events"] = task_execution_events
else:
task_dict = task_status
calls_dict[call_name] = task_dict
return calls_dict
async def loop_execution_status(submission_map_fp: str):
"""
This function loops over the workflow IDs in the submission map and prints the status
continually until all workflows are done.
:param submission_map_fp: The path to the submission map file (created by submit.sh)
"""
submit_fp = Path(submission_map_fp)
# load all the workflow IDs that we want to monitor
with open(submit_fp, "r") as f:
submission_map = json.load(f)
num_submissions = len(submission_map)
# we want to keep track of whether we are on the first loop to overwrite stdout
first_loop = True
# keep track of the number of previous lines, again for overwriting stdout
prev_line_count = 0
prev_submissions = set()
pbar = tqdm(total=num_submissions, desc="Workflow status", unit=" workflows")
while True:
# get the status of all the workflows
async with ClientSession() as session:
futures = []
for pair in submission_map:
t = asyncio.create_task(get_status(pair["workflow_id"], session))
futures.append(t)
# gather all the futures
finished = await asyncio.gather(*futures)
# create a single dictionary of all the workflow IDs and their statuses and
# filter workflows that are not running
status_dict = {
k: v
for d in finished
for k, v in d.items()
if v.get("status") != "Succeeded" and v.get("status") != "Failed"
}
iteration_submissions = set(status_dict.keys())
pbar.update(num_submissions - len(status_dict))
finished_submissions = list(prev_submissions.difference(iteration_submissions))
if len(finished_submissions) > 0:
pbar.write(f"Finished workflows: {finished_submissions} at {datetime.now()}")
# break if there are no more workflows that have not "succeeded" or "failed"
if len(status_dict) == 0:
print("\x1b[1A\x1b[2K" * prev_line_count)
print("All workflows are done!")
break
# get metadata of non-succeeded workflows only
async with ClientSession() as session:
futures = []
# submit our futures
for k in status_dict.keys():
t = asyncio.create_task(get_metadata(k, session))
futures.append(t)
# gather all the futures
finished = await asyncio.gather(*futures)
# add a calls key for metadata about the latest calls
for k, v in zip(status_dict.keys(), finished):
status_dict[k]["calls"] = v
# sort the workflows by their status
sorted_status_dict = {
k: v
for k, v in sorted(status_dict.items(), key=lambda item: item[1]["status"])
}
fmt_status_dict = json.dumps(sorted_status_dict, indent=4)
# we want to erase what we wrote previously by sending the escape sequence
# the number of times we wrote to stdout previously
if not first_loop:
print("\x1b[1A\x1b[2K" * prev_line_count)
# print the status of the workflows
print(fmt_status_dict)
# update the number of lines we wrote to stdout
first_loop = False
prev_line_count = len(fmt_status_dict.splitlines()) + 1
# pause for a bit
await asyncio.sleep(15)
def main():
parser = argparse.ArgumentParser(
description="This script renders the execution " "status of the pipeline"
)
parser.add_argument(
"workflow_id_file", help="Workflow ID map, generated by submit.sh", type=str
)
args = parser.parse_args()
try:
asyncio.run(loop_execution_status(args.workflow_id_file))
except KeyboardInterrupt:
print("KeyboardInterrupt received, exiting...")
exit()
if __name__ == "__main__":
main()