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 job(query: str):
message = None
if not query.startswith('test'):
job_id = utils.get_job_from_string(query)
else:
job_id = query
job = utils.get_job(job_id)
if not job:
message = f'There isn`t job for word: "{query}"'
else:
if job.get_error_path():
message = f'Error for job for word: "{query}"'
if message:
flash(message, 'errors')
return redirect(url_for('main'))
try:
job_results = utils.apply_window(utils.get_results(job))
except FileNotFoundError:
return render_template("job.html",
meta=job.get_meta(),
inprogress=True,
data=[],
labels=[])
return render_template("job.html",
meta=job.get_meta(),
data=job_results.data,
labels=list(map(str, job_results.labels)))
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)
def job(request, job_id):
job_obj = utils.get_job(job_id, request)
return render_to_response('job.html', RequestContext(request, { 'job': job_obj } ))
def get_job_view(request):
id = request.GET.get("id")
ret = utils.get_job(id)
return public.success_result_http(ret)
def job(request, job_id):
job_obj = utils.get_job(job_id, request)
return render_to_response('job.html',
RequestContext(request, {'job': job_obj}))
def get_job_view(request):
id = request.GET.get("id")
ret = utils.get_job(id)
return public.success_result_http(ret)