def file_list_json(request):
app_access = __check_app_access()
if app_access is not None:
return app_access
authed_user = auth.get_current_user()
user_key = ps.get_user_key_by_id(authed_user.user_id())
#TODO: This shouldn't be here - a generic method in APIPermissions would be nice.
# 'your files'
file_list = []
lst = ps.get_user_permissions_list(user_key)
temp_group = []
if lst is not None:
for perm in lst:
list_entry = {}
file_entry = ps.get_file_by_key(perm.file_key)
if file_entry is not None:
temp_file = ds.get_file_info(file_entry.file_name)
if temp_file is None:
continue
list_entry.update({ 'permissions' : 'yes',
'friendlyName' : file_entry.friendly_name,
'colour' : perm.colour,
'starred' : perm.starred
} )
temp_file.filename = temp_file.filename.rpartition('/')[2]
list_entry.update( { 'filename' : temp_file.filename,
'size' : temp_file.st_size,
'hash' : temp_file.etag,
'timestamp' : temp_file.st_ctime
})
temp_group.append(list_entry)
if len(temp_group) > 0:
file_list.append({ 'catagory' : 'owned',
'heading' : 'Your Files',
'type' : 'files',
'data' : temp_group })
if len(file_list) == 0:
file_list.append({ 'catagory' : 'notice',
'type' : 'html',
# TODO: move this line out
'data' : '<a data-toggle="modal" data-target="#uploadModal" class="list-group-item">No files - Click here to upload one</a>'
})
return HttpResponse(json.dumps(file_list), content_type="application/json")
def __check_app_access(redir = False):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response(redir)
else:
elem = ps.get_element_key_by_ref('canLogIn')
if elem is not None:
user_key = ps.get_user_key_by_id(authed_user.user_id())
if user_key is not None:
perm = ps.get_user_element_permissions(user_key, elem)
if perm is not None:
if perm.access:
return None
return __not_signed_up_response(redir)
def analysis_status_json(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
user_key = ps.get_user_key_by_id(authed_user.user_id())
response_part = {
'backoff' : 0, #tells the client to back off for a given amount of time (milliseconds) (This is added to the client's constant poll interval)
'giveup' : True, #True instructs the client to stop polling - useful for situations such as unauthed requests where polling will never result in the user being shown a graph
'done' : False #True indicates that the analysis has finished and that the user can be redirected to the new image
}
try:
file_req = json.loads(request.raw_post_data)
except ValueError:
response_part.update({'error' : 'Invalid request payload.'})
return HttpResponse(json.dumps(response_part), content_type="application/json")
if 'filename' not in file_req:
response_part.update({'error' : 'Incomplete request.'})
return HttpResponse(json.dumps(response_part), content_type="application/json")
chk_file_name = DATA_BUCKET + '/' + file_req['filename']
file_entry = ps.get_file_by_name(chk_file_name)
logging.info(file_entry)
if file_entry is None:
response_part.update( { 'error' : 'File or gate not recognised.', 'giveup' : False } )
return HttpResponse(json.dumps(response_part), content_type="application/json")
else:
fp_entry = ps.get_user_file_permissions(file_entry.key, user_key)
if fp_entry is None:
response_part.update( { 'error' : 'Permission denied.' } )
return HttpResponse(json.dumps(response_part), content_type="application/json")
name = file_req['filename']
is_done = ds.check_exists(GRAPH_BUCKET + '/' + name + '.png', None)
#Prevent redirecting before the view is ready
is_done &= ds.check_exists(DATA_BUCKET + '/' + name, None)
#Prevent redirecting before gating info is ready
is_done &= ds.check_exists(INFO_BUCKET + '/' + name + '.txt', None)
response_part.update( { 'done' : is_done, 'giveup' : False } )
return HttpResponse(json.dumps(response_part), content_type="application/json")
def generate_gating_feedback(status, message, new_graph_name = None, existing_name = None, new_axis_a = "FSC-A", new_axis_b = "SSC-A"):
if new_graph_name is not None:
## Authenticate and get user
authed_user = auth.get_current_user()
user_key = ps.get_user_key_by_id(authed_user.user_id())
## Get previous file permissions.
previous_file = ps.get_file_by_name(DATA_BUCKET + existing_name)
previous_permissions = ps.get_user_file_permissions(previous_file.key, user_key)
if isinstance(new_graph_name, list):
new_graph_names = new_graph_name
else:
new_graph_names = [new_graph_name]
# Overwrite new_graph_name for return dictionary
new_graph_name = new_graph_names[0]
logging.info(new_graph_name)
logging.info(new_graph_names)
for new_name in new_graph_names:
new_file = FileInfo(file_name = DATA_BUCKET + new_name,
owner_key = user_key,
friendly_name = previous_file.friendly_name + '-gate',
prev_file_key = previous_file.key,
axis_a = new_axis_a,
axis_b = new_axis_b )
file_key = ps.add_file(new_file)
ps.add_file_permissions(file_key,
user_key,
Permissions (
previous_permissions.read,
previous_permissions.write,
previous_permissions.full_control
),
previous_permissions.colour,
False)
return {
'status': status,
'message': message,
'url': reverse('get_graph', args=[new_graph_name]),
'graphName' : new_graph_name
}
def tool(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
try:
gate_info = json.loads(request.raw_post_data)
print gate_info
except ValueError:
return HttpResponse(simplejson.dumps(gt.generate_gating_feedback('fail', 'Invalid request payload')), content_type="application/json")
## \todo This should probably iterate over list
if (('points' not in gate_info) or
('tool' not in gate_info) or
('filename' not in gate_info)):
return HttpResponse(simplejson.dumps(gt.generate_gating_feedback('fail', 'Incomplete gate parameters')), content_type="application/json")
if (gate_info['points']):
if not isinstance(gate_info['points'], list):
return HttpResponse(simplejson.dumps(gt.generate_gating_feedback('fail', 'Invalid points list')), content_type="application/json")
else:
# Normalise false value to None
gate_info.update( { 'points' : None } )
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + gate_info['filename'])
if file_entry is None:
return HttpResponse(simplejson.dumps(gt.generate_gating_feedback('fail', 'File not found')), content_type="application/json")
gate_info.update( { 'axes' : { 'x' : file_entry.axis_a, 'y' : file_entry.axis_b } } )
tool = gt.AVAILABLE_TOOLS.get(gate_info['tool'], gt.no_such_tool)
## first two arguments passed for compatibility
tool_response = tool(gate_info)
## Load balance instances in the background.
background.run(instances.balance, 0)
json_response = simplejson.dumps(tool_response);
return HttpResponse(json_response, content_type="application/json")
def app(request):
lst = ds.list(DATA_BUCKET)
file_info = None
app_access = __check_app_access(True)
if app_access is not None:
return app_access
authed_user = auth.get_current_user()
authed_user_nick = authed_user.nickname()
request.upload_handlers = [upload_handling.fcsUploadHandler()]
if request.method == 'POST':
form = forms.UploadFile(request.POST, request.FILES)
if form.is_valid():
cd = form.cleaned_data
return redirect('#!/preview/' + request.FILES['file'].name)
else:
return render(request, 'app.html', {'form': form, 'files' : lst , 'current_file' : file_info, 'authed_user_nick' : authed_user_nick})
else:
form = forms.UploadFile()
return render(request, 'app.html', {'form': form, 'files' : lst , 'current_file' : file_info, 'authed_user_nick' : authed_user_nick})
def signup_handler(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
user_key = ps.get_user_key_by_id(authed_user.user_id())
if user_key is None:
user_key = ps.add_user(authed_user)
response_part = {
'success' : False
}
try:
file_req = json.loads(request.raw_post_data)
except ValueError:
response_part.update({'error' : 'Invalid request payload.'})
return HttpResponse(json.dumps(response_part), content_type="application/json")
if 'action' not in file_req:
response_part.update({'error' : 'Incomplete request.'})
return HttpResponse(json.dumps(response_part), content_type="application/json")
elem_key = ps.get_element_key_by_ref('canLogIn')
if elem_key is None:
elem_key = ps.add_element('canLogIn')
user_elem = ps.get_user_element_permissions(user_key, elem_key)
if user_elem is not None:
response_part.update({'error' : 'Already signed up.'})
return HttpResponse(json.dumps(response_part), content_type="application/json")
else:
ps.add_element_permissions(user_key, elem_key, True)
response_part.update({'success' : True})
return HttpResponse(json.dumps(response_part), content_type="application/json")
def file_preview(request, file = None):
app_access = __check_app_access()
if app_access is not None:
return app_access
## Authentication.
authed_user = auth.get_current_user()
if authed_user is None:
authed_user_nick = 'Guest'
else:
authed_user_nick = authed_user.nickname()
## Graph visualisation.
# Replaced by a spinning canvas on the clientside
# if not ds.check_exists(GRAPH_BUCKET + '/' + file_name_without_extension + '.png', None):
# file_name_without_extension = None
#TODO: Might need to be simplified or moved to a function in fileinfo
# TODO the folowing should be replaced by a method in the APIDatastore
file_info = ps.get_file_by_name(DATA_BUCKET + '/' + file)
undo_uri = None
if file_info is not None:
prev_file = ps.get_file_by_key(file_info.prev_file_key)
if prev_file is not None:
undo_uri = prev_file.file_name.rpartition(DATA_BUCKET + '/')[2]
lst = ds.list(DATA_BUCKET)
current_file = None
for temp_file in lst:
temp_file.filename = temp_file.filename.rpartition('/')[2]
if temp_file.filename == file:
current_file = temp_file;
# Check whether graph exists yet.
graph_exists = ds.check_exists(GRAPH_BUCKET + '/' + file.partition('.')[0] + '.png', None)
# Get permissions for file.
permissions = None
if file_info is not None:
user_key = ps.get_user_key_by_id(authed_user.user_id())
permissions = ps.get_user_file_permissions(file_info.key, user_key)
template_dict = {'current_file' : current_file,
'name' : file,
'authed_user_nick': authed_user_nick,
'file_info' : file_info,
'graph_ready' : graph_exists,
'undo_link' : undo_uri,
'permissions' : permissions }
## Get gating information.
info_path = INFO_BUCKET + '/' + file.partition('.')[0] + '.txt'
if ds.check_exists(info_path, None):
buffer = ds.open(info_path)
if buffer:
file_text = buffer.read()
stats = file_text.split(' ')
if len(stats)>=3:
template_dict.update( { 'gating_stats' : { 'selection' : stats[0],
'total' : stats[1],
'percent' : float(stats[2])*100 } } )
## Get different axis
axis_path = INFO_BUCKET + '/' + file.partition('.')[0] + 'info.txt'
if ds.check_exists(axis_path, None):
buffer = ds.open(axis_path)
if buffer:
file_text = buffer.read()
axis = file_text.split('\n')
if len(axis)>0:
while '' in axis:
axis.remove('')
template_dict.update( { 'available_axes' : axis } )
return render(request, 'file_preview.html', template_dict)
def signup(request):
link = auth.create_login_url('/#!/signup')
return redirect(link)
def file_permissions_edit(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
user_key = ps.get_user_key_by_id(authed_user.user_id())
json_response = {
'success' : False
}
action_responses = []
try:
permissions_request = json.loads(request.raw_post_data)
except ValueError:
json_response.update( {'error' : 'Invalid request payload.'} )
return HttpResponse(json.dumps(json_response), content_type="application/json")
if ( ('actions' not in permissions_request)
or ('filename' not in permissions_request)):
json_response.update( {'error' : 'Incomplete request.'} )
return HttpResponse(json.dumps(json_response), content_type="application/json")
filename = permissions_request['filename']
actions = permissions_request['actions']
if not isinstance(actions, list):
json_response.update( {'error' : 'Actions list is not a list.'} )
return HttpResponse(json.dumps(json_response), content_type="application/json")
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is None:
json_response.update( { 'error' : 'File does not exist.' } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
fp_entry = ps.get_user_file_permissions(file_entry.key, user_key)
if fp_entry is None:
json_response.update( { 'error' : 'Permission denied.' } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
res = []
for action in actions:
if ( ('action' in action) # Can't do anything without an action name
and ('userEmail' in action)): # Or a user for that matter
user_email = action['userEmail']
action_name = action['action']
response_part = {
'success' : False,
'action' : action,
'userEmail' : user_email
}
share_user_key = ps.get_user_key_by_email(user_email)
if share_user_key is None:
response_part.update( { 'error' : 'User not found.' } )
action_responses.append(response_part)
continue
else:
response_part = {
'success' : False,
'error' : 'Incomplete request.'
}
continue
edit_permissions = ps.get_user_file_permissions(file_entry.key, share_user_key)
if action_name == 'dropUser':
if edit_permissions is None:
response_part.update( { 'error' : 'User does not have permissions for this file.' } )
else:
remove_action = ps.revoke_permissions_by_key(edit_permissions.key)
if remove_action:
response_part.update( { 'success' : True } )
else:
response_part.update( { 'error' : 'Could not revoke permissions.' } )
elif action_name == 'addUser':
if edit_permissions is None:
if ( ('read' not in action)
or ('write' not in action)
or ('fullControl' not in action)):
response_part.update( { 'error' : 'Incomplete action - permissions not specified.'} )
else:
add_action = ps.add_file_permissions(file_entry.key, share_user_key,
Permissions(
action['read'],
action['write'],
action['fullControl']
) )
if add_action:
response_part.update( { 'success' : True } )
else:
response_part.update( { 'error' : 'Could not add user to file.' } )
else:
response_part.update( { 'error' : 'User already has permissions for this file.' } )
elif action_name == 'editUser':
if edit_permissions is not None:
if ( ('read' not in action)
or ('write' not in action)
or ('fullControl' not in action)):
response_part.update( { 'error' : 'Incomplete action - permissions not specified.'} )
else:
edit_action = ps.modify_file_permissions_by_key(edit_permissions.key,
Permissions(
action['read'],
action['write'],
action['fullControl']
) )
if edit_action:
response_part.update( { 'success' : True } )
else:
response_part.update( { 'error' : 'Could not update user permissions.' } )
else:
response_part.update( { 'error' : 'User does not have a permissions entry for this file.' } )
else:
response_part.update( { 'error' : "Action '%s' not recognised."%action_name } )
action_responses.append(response_part)
json_response.update( { 'success' : True, 'actions' : action_responses } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
def logout(request):
link = auth.create_logout_url('/')
return redirect(link)
def file_permissions_json(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
user_key = ps.get_user_key_by_id(authed_user.user_id())
json_response = {
'success' : False,
'users' : []
}
try:
list_req = json.loads(request.raw_post_data)
except ValueError:
json_response.update({'error' : 'Invalid request payload.'})
return HttpResponse(json.dumps(json_response), content_type="application/json")
if 'filename' not in list_req:
json_response.update({'error' : 'Incomplete request.'})
return HttpResponse(json.dumps(json_response), content_type="application/json")
filename = list_req['filename']
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is None:
json_response.update( { 'error' : 'File does not exist.' } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
fp_entry = ps.get_user_file_permissions(file_entry.key, user_key)
if fp_entry is None:
json_response.update( { 'error' : 'Permission denied.' } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
permissions_list = ps.get_file_permissions_list(file_entry.key)
if permissions_list is None:
json_response.update( { 'error' : 'Permission could not be retrieved.' } )
return HttpResponse(json.dumps(json_response), content_type="application/json")
for perm in permissions_list:
new_perm = {}
user = ps.get_user_by_key(perm.user_key)
if user is not None:
nickname = user.nickname()
email = user.email()
user_found = True
else:
nickname = 'Unknown'
email = 'unknown'
user_found = False
new_perm.update( {
'nickname' : nickname,
'userFound' : user_found,
'email' : email,
'isMe' : (perm.user_key == user_key),
'permissions' : {
'read' : perm.read,
'write' : perm.write,
'fullControl' : perm.full_control
}
} )
json_response['users'].append(new_perm)
json_response.update({ 'success' : True })
return HttpResponse(json.dumps(json_response), content_type="application/json")
def login(request):
link = auth.create_login_url('app/')
return redirect(link)
def file_list_edit(request):
authed_user = auth.get_current_user()
if authed_user is None:
return __unauthed_response()
user_key = ps.get_user_key_by_id(authed_user.user_id())
try:
actions = json.loads(request.raw_post_data)
except ValueError:
return HttpResponse(json.dumps({'error' : 'invalid request payload'}), content_type="application/json")
if not isinstance(actions, list):
return HttpResponse(json.dumps({'error' : 'Payload is not a list'}), content_type="application/json")
res = []
for a in actions:
#We can't do anything without a filename
if 'filename' not in a:
continue
else:
filename = a['filename']
if 'action' not in a:
continue
else:
action = a['action']
res_fragment = {
'filename' : a['filename'],
'action' : a['action']
}
if action == 'delete':
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is not None:
ps.remove_file_by_key(file_entry.key)
ds.delete(DATA_BUCKET + '/' + filename)
ds.delete(INFO_BUCKET + '/' + filename + 'info.txt')
ds.delete(INFO_BUCKET + '/' + filename + '.txt')
ds.delete(GRAPH_BUCKET + '/' + filename + '.png')
res_fragment.update( { 'success' : True } )
#Reinstate this when CE PAL is available
#else:
#res_fragment.update( { 'success' : False, 'error' : 'File does not exist.' } )
elif action == 'rename':
if 'newname' not in a:
res_fragment.update( { 'success' : False, 'error' : 'New name not specified' } )
else:
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is None:
res_fragment.update( { 'success' : False, 'error' : 'File does not exist.' } )
else:
file_entry.friendly_name = a['newname']
if ps.update_file(file_entry):
res_fragment.update( { 'success' : True } )
else:
res_fragment.update( { 'success' : False, 'error' : 'Could not rename file' } )
elif action == 'star' or action == 'unstar':
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is None:
res_fragment.update( { 'success' : False, 'error' : 'File does not exist.' } )
else:
fp_entry = ps.get_user_file_permissions(file_entry.key, user_key)
if fp_entry is None:
res_fragment.update( { 'success' : False, 'error' : 'Permissions entry not found' } )
else:
if ps.modify_file_permissions_by_key(fp_entry.key, new_starred = (action == 'star')):
res_fragment.update( { 'success' : True } )
else:
res_fragment.update( { 'success' : False, 'error' : 'Could not update file' } )
elif action == 'recolour':
if 'newcolour' not in a:
res_fragment.update( { 'success' : False, 'error' : 'New colour not specified' } )
else:
colour = a['newcolour']
chk_string = re.compile("^[A-Fa-f0-9]{6}$")
if (chk_string.match(colour)):
file_entry = ps.get_file_by_name(DATA_BUCKET + '/' + filename)
if file_entry is None:
res_fragment.update( { 'success' : False, 'error' : 'File does not exist.' } )
else:
fp_entry = ps.get_user_file_permissions(file_entry.key, user_key)
if fp_entry is None:
res_fragment.update( { 'success' : False, 'error' : 'Permissions entry not found' } )
else:
if ps.modify_file_permissions_by_key(fp_entry.key, new_colour = colour):
res_fragment.update( { 'success' : True } )
else:
res_fragment.update( { 'success' : False, 'error' : 'Could not update file' } )
else:
res_fragment.update( { 'success' : False, 'error' : 'New colour invalid' } )
else:
res_fragment.update( { 'success' : False, 'error' : 'Action not recognised' } )
res.append(res_fragment)
return HttpResponse(json.dumps(res), content_type="application/json")