Пример #1
0
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)
Пример #2
0
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)))
Пример #3
0
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)
Пример #4
0
def job(request, job_id):
    job_obj = utils.get_job(job_id, request)
    return render_to_response('job.html', RequestContext(request, { 'job': job_obj } ))
Пример #5
0
def get_job_view(request):
    id = request.GET.get("id")
    ret = utils.get_job(id)
    return public.success_result_http(ret)
Пример #6
0
def job(request, job_id):
    job_obj = utils.get_job(job_id, request)
    return render_to_response('job.html',
                              RequestContext(request, {'job': job_obj}))
Пример #7
0
def get_job_view(request):
    id = request.GET.get("id")
    ret = utils.get_job(id)
    return public.success_result_http(ret)