def generate(n=5): projects = [] for i in range(1, n): name = random.choice(project_names) % i info = 'some info=%s' % i project = authorize.create_project(user=user, name=name, info=info) projects.append(project) logger.info('creating %s' % name) # data names data_names = ('short-good-input.gtrack', 'short-data.bed') # visualization names track_names = ('differential expression', 'HELA subtract', 'Default track') # a subset of projects get data, visualization and results added to them subset = projects[-1:] for project in subset: # create some tracks for this project for tname in track_names: json = dict() track = authorize.create_track(user=user, pid=project.id, name=tname, json=json) logger.info('creating track %s' % track.name) assert (project.track_count(), len(track_names)) # upload some data names for name in data_names: logger.info('uploading data %s' % name) stream = File(open(conf.testdata(name))) data = authorize.create_data(user=user, pid=project.id, stream=stream, name=name, info='test data') # create some results logger.info('adding results content and image') stream1 = File(open(conf.testdata('short-results.txt'))) image1 = File(open(conf.testdata('readcounts.png'), 'rb')) result1 = authorize.create_result(user=user, data=data, content=stream1, image=image1) image2 = File(open(conf.testdata('shift.png'), 'rb')) result2 = authorize.create_result(user=user, data=data, content=None, image=image2)
def upload_processor(request, pid): "Handles the actual data upload" user = request.user if user.is_authenticated() and user.username!='public': if 'upload' in request.POST: count = 0 for i in range(50): # take at most 50 files key = 'File%s' % i if key in request.FILES: count += 1 stream = request.FILES[key] name = html.chop_dirname( stream.name ) logger.debug('%s uploaded file %s' % (user.username, name) ) authorize.create_data(user=user, pid=pid, stream=stream, name=name, info='no information') user.message_set.create(message="Uploaded %s files" % count) if 'simple' in request.POST: return html.redirect("/project/view/%s/" % pid) # this is needed only because the JUPload applet makes a HEAD request return html.response('SUCCESS\n')
def generate(n=5): projects = [] for i in range(1, n): name = random.choice(project_names) % i info = 'some info=%s' % i project = authorize.create_project(user=user, name=name, info=info) projects.append(project) logger.info('creating %s' % name) # data names data_names = ( 'short-good-input.gtrack', 'short-data.bed') # visualization names track_names = ( 'differential expression', 'HELA subtract', 'Default track') # a subset of projects get data, visualization and results added to them subset = projects[-1:] for project in subset: # create some tracks for this project for tname in track_names: json = dict() track = authorize.create_track(user=user, pid=project.id, name=tname, json=json ) logger.info('creating track %s' % track.name) assert (project.track_count(), len(track_names)) # upload some data names for name in data_names: logger.info('uploading data %s' % name) stream = File( open(conf.testdata(name)) ) data = authorize.create_data(user=user, pid=project.id, stream=stream, name=name, info='test data') # create some results logger.info('adding results content and image') stream1 = File( open(conf.testdata('short-results.txt')) ) image1 = File( open(conf.testdata('readcounts.png'),'rb') ) result1 = authorize.create_result( user=user, data=data, content=stream1, image=image1) image2 = File( open(conf.testdata('shift.png'), 'rb') ) result2 = authorize.create_result( user=user, data=data, content=None, image=image2)
def test_data_creation(self): """ Create datasets """ # it seems that importing it earlier messes up the test database setup from genetrack.server.web import authorize john = User.objects.get(username='******') project = authorize.create_project(user=john, name="Test project") stream = File( open(conf.testdata('test-users.csv')) ) data = authorize.create_data(user=john, pid=project.id, stream=stream, name="Test data") # project counts update project = authorize.get_project(user=john, pid=project.id) self.assertEqual(project.data_count, 1) # testing data deletion authorize.delete_data(user=john, pid=project.id, dids=[data.id]) project = authorize.get_project(user=john, pid=project.id) self.assertEqual(project.data_count, 0)
def test_data_creation(self): """ Create datasets """ # it seems that importing it earlier messes up the test database setup from genetrack.server.web import authorize john = User.objects.get(username='******') project = authorize.create_project(user=john, name="Test project") stream = File(open(conf.testdata('test-users.csv'))) data = authorize.create_data(user=john, pid=project.id, stream=stream, name="Test data") # project counts update project = authorize.get_project(user=john, pid=project.id) self.assertEqual(project.data_count, 1) # testing data deletion authorize.delete_data(user=john, pid=project.id, dids=[data.id]) project = authorize.get_project(user=john, pid=project.id) self.assertEqual(project.data_count, 0)