def cancel_job(request):
"""
Cancel nhmmer search.
HTTP responses:
* 200 - job cancelled
* 400 - incorrect input
* 500 - internal error
"""
proxy_result = nhmmer_proxy(request)
if proxy_result:
return proxy_result
msg = messages['cancel']
job_id = request.GET.get('id', '')
if not job_id:
status = 400
return Response(msg[status], status=status)
try:
# cancel job
job = get_job(job_id)[0]
job.cancel()
# kill nhmmer process
kill_nhmmer_job(job_id)
# set query `finished` field
query = Query.objects.get(id=job_id)
query.finished = datetime.datetime.now()
query.save()
status = 200
return Response(msg[status], status=status)
except:
status = 500
return Response(msg[status], status=status)
def submit_job(request):
"""
Start nhmmer search.
HTTP responses:
* 201 - job submitted
* 400 - incorrect input
* 500 - internal error
"""
proxy_result = nhmmer_proxy(request)
if proxy_result:
return proxy_result
msg = messages['submit']
if request.method == 'POST':
query = request.POST.get('q', '')
description = request.POST.get('description', '')
elif request.method == 'GET':
query = request.GET.get('q', '')
description = request.GET.get('description', '')
if not query:
status = 400
return Response(msg[status]['no_sequence'], status=status)
if len(query) < MIN_LENGTH:
status = 400
return Response(msg[status]['too_short'], status=status)
elif len(query) > MAX_LENGTH:
status = 400
return Response(msg[status]['too_long'], status=status)
try:
status = 201
job_id = enqueue_job(query, description)
url = request.build_absolute_uri(
reverse('nhmmer-job-status') +
'?id=%s' % job_id
)
data = {
'id': job_id,
'url': url,
}
return Response(data, status=status)
except:
status = 500
return Response(msg[status], status=status)
def get_status(request):
"""
Get status of an nhmmer search.
HTTP responses:
* 200 - job found
* 400 - job id not provided in the url
* 404 - job not found in the queue
* 500 - internal error
"""
proxy_result = nhmmer_proxy(request)
if proxy_result:
return proxy_result
msg = messages['status']
job_id = request.GET.get('id', '')
if not job_id:
status = 400
return Response(msg[status], status=status)
try:
job = get_job(job_id)[0]
if job:
url = request.build_absolute_uri(
reverse('nhmmer-job-results') +
'?id=%s' % job_id
)
return Response(StatusSerializer({
'id': job.id,
'status': job.get_status(),
'enqueued_at': job.enqueued_at,
'ended_at': job.ended_at,
'expiration': job.meta.get('expiration', None),
'url': url,
}).data)
else:
status = 404
return Response(msg[status], status=status)
except:
status = 500
return Response(msg[status], status=status)