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)
