def test_submit_noise_configuration_happy(self, connectivity_factory):
"""
Submit noise configuration writes the noise array on the required key in the burst configuration
"""
self.init()
noise_controller = NoiseConfigurationController()
simulator_controller = SimulatorController()
simulator_controller.index()
simulator = simulator_controller.context.simulator
connectivity = connectivity_factory()
simulator.connectivity = connectivity.gid
simulator.integrator = HeunStochasticViewModel()
# a noise configuration in the format expected by submit. Assumes Generic2dOscillator model.
nodes_range = list(range(connectivity.number_of_regions))
noise_in = [{'V': 1.0, 'W': 2.0} for _ in nodes_range]
noise_in = json.dumps(noise_in)
self._expect_redirect('/burst/', noise_controller.submit, noise_in)
expected_noise_arr = [[1.0 for _ in nodes_range],
[2.0 for _ in nodes_range]]
actual_noise_arr = simulator.integrator.noise.nsig
assert (expected_noise_arr == actual_noise_arr).all()
self.cleanup()
def __init__(self):
BaseController.__init__(self)
self.context = SelectedAdapterContext()
self.operation_services = OperationService()
self.simulator_controller = SimulatorController()
analyze_category, groups = self.algorithm_service.get_analyze_groups()
adapters_list = []
for adapter_group in groups:
if len(adapter_group.children) > 1:
ids = [str(child.id) for child in adapter_group.children]
ids = ','.join(ids)
adapter_link = '/flow/show_group_of_algorithms/' + str(
analyze_category.id) + "/" + ids
else:
adapter_link = self.get_url_adapter(
analyze_category.id, adapter_group.children[0].id)
adapters_list.append({
common.KEY_TITLE:
adapter_group.name,
'link':
adapter_link,
'description':
adapter_group.description,
'subsection':
adapter_group.children[0].subsection_name
})
self.analyze_adapters = adapters_list
def transactional_setup_method(self):
"""
Sets up the environment for testing;
creates a `RegionsModelParametersController` and a connectivity
"""
self.init()
self.region_m_p_c = RegionsModelParametersController()
simulator_controller = SimulatorController()
simulator_controller.index()
self.simulator = simulator_controller.context.simulator
self._setup_dynamic()
def setup_method(self):
"""
Sets up the environment for testing;
creates a `FlowController`
"""
self.init()
self.flow_c = FlowController()
self.burst_c = SimulatorController()
self.operation_service = OperationService()
def test_edit_model_parameters(self, region_mapping_index_factory):
self.init()
surface_m_p_c = SurfaceModelParametersController()
simulator_controller = SimulatorController()
simulator_controller.index()
simulator = simulator_controller.context.simulator
region_mapping_index = region_mapping_index_factory()
simulator.connectivity = region_mapping_index.fk_connectivity_gid
simulator.surface = CortexViewModel()
simulator.surface.surface_gid = region_mapping_index.fk_surface_gid
simulator.surface.region_mapping_data = region_mapping_index.gid
result_dict = surface_m_p_c.edit_model_parameters()
expected_keys = ['urlNormals', 'urlNormalsPick', 'urlTriangles', 'urlTrianglesPick',
'urlVertices', 'urlVerticesPick', 'mainContent', 'parametersEquationPlotForm',
'baseUrl', 'equationsPrefixes', 'brainCenter', 'applied_equations']
# map(lambda x: self.assertTrue(x in result_dict), expected_keys)
assert all(x in result_dict for x in expected_keys)
assert result_dict['baseUrl'] == '/spatial/modelparameters/surface'
assert result_dict['mainContent'] == 'spatial/model_param_surface_main'
def init_cherrypy(arguments=None):
#### Mount static folders from modules marked for introspection
arguments = arguments or []
CONFIGUER = TvbProfile.current.web.CHERRYPY_CONFIGURATION
if DataEncryptionHandler.encryption_enabled():
CONFIGUER["/"]["tools.sessions.storage_class"] = CleanupSessionHandler
for module in arguments:
module_inst = importlib.import_module(str(module))
module_path = os.path.dirname(os.path.abspath(module_inst.__file__))
CONFIGUER["/static_" + str(module)] = {
'tools.staticdir.on': True,
'tools.staticdir.dir': '.',
'tools.staticdir.root': module_path
}
#### Mount controllers, and specify the root URL for them.
cherrypy.tree.mount(BaseController(), "/", config=CONFIGUER)
cherrypy.tree.mount(UserController(), "/user/", config=CONFIGUER)
cherrypy.tree.mount(ProjectController(), "/project/", config=CONFIGUER)
cherrypy.tree.mount(FigureController(),
"/project/figure/",
config=CONFIGUER)
cherrypy.tree.mount(FlowController(), "/flow/", config=CONFIGUER)
cherrypy.tree.mount(SettingsController(), "/settings/", config=CONFIGUER)
cherrypy.tree.mount(HelpController(), "/help/", config=CONFIGUER)
cherrypy.tree.mount(SimulatorController(), "/burst/", config=CONFIGUER)
cherrypy.tree.mount(ParameterExplorationController(),
"/burst/explore/",
config=CONFIGUER)
cherrypy.tree.mount(DynamicModelController(),
"/burst/dynamic/",
config=CONFIGUER)
cherrypy.tree.mount(SpatioTemporalController(),
"/spatial/",
config=CONFIGUER)
cherrypy.tree.mount(RegionsModelParametersController(),
"/burst/modelparameters/regions/",
config=CONFIGUER)
cherrypy.tree.mount(SurfaceModelParametersController(),
"/spatial/modelparameters/surface/",
config=CONFIGUER)
cherrypy.tree.mount(RegionStimulusController(),
"/spatial/stimulus/region/",
config=CONFIGUER)
cherrypy.tree.mount(SurfaceStimulusController(),
"/spatial/stimulus/surface/",
config=CONFIGUER)
cherrypy.tree.mount(LocalConnectivityController(),
"/spatial/localconnectivity/",
config=CONFIGUER)
cherrypy.tree.mount(NoiseConfigurationController(),
"/burst/noise/",
config=CONFIGUER)
cherrypy.tree.mount(HPCController(), "/hpc/", config=CONFIGUER)
cherrypy.config.update(CONFIGUER)
# ----------------- Register additional request handlers -----------------
# This tool checks for MAX upload size
cherrypy.tools.upload = Tool('on_start_resource',
RequestHandler.check_upload_size)
# This tools clean up files on disk (mainly after export)
cherrypy.tools.cleanup = Tool('on_end_request',
RequestHandler.clean_files_on_disk)
# ----------------- End register additional request handlers ----------------
# Register housekeeping job
if TvbProfile.current.hpc.IS_HPC_RUN and TvbProfile.current.hpc.CAN_RUN_HPC:
cherrypy.engine.housekeeper = cherrypy.process.plugins.BackgroundTask(
TvbProfile.current.hpc.BACKGROUND_JOB_INTERVAL,
HPCOperationService.check_operations_job)
cherrypy.engine.housekeeper.start()
# HTTP Server is fired now ######
cherrypy.engine.start()
class FlowController(BaseController):
"""
This class takes care of executing steps in projects.
"""
def __init__(self):
BaseController.__init__(self)
self.context = SelectedAdapterContext()
self.files_helper = FilesHelper()
self.operation_services = OperationService()
self.simulator_controller = SimulatorController()
analyze_category, groups = self.algorithm_service.get_analyze_groups()
adapters_list = []
for adapter_group in groups:
if len(adapter_group.children) > 1:
ids = [str(child.id) for child in adapter_group.children]
ids = ','.join(ids)
adapter_link = '/flow/show_group_of_algorithms/' + str(analyze_category.id) + "/" + ids
else:
adapter_link = self.get_url_adapter(analyze_category.id, adapter_group.children[0].id)
adapters_list.append({common.KEY_TITLE: adapter_group.name,
'link': adapter_link,
'description': adapter_group.description,
'subsection': adapter_group.children[0].subsection_name})
self.analyze_adapters = adapters_list
@expose_page
@settings
@context_selected
def step_analyzers(self):
"""
Choose exact action/adapter for current step.
"""
try:
analyze_category, groups = self.algorithm_service.get_analyze_groups()
step_name = analyze_category.displayname.lower()
template_specification = dict(mainContent="header_menu", section_name=step_name, controlPage=None,
title="Select an analyzer", displayControl=False)
template_specification[common.KEY_SUBMENU_LIST] = self.analyze_adapters
return self.fill_default_attributes(template_specification)
except ValueError:
message = 'Could not load analyzers!'
common.set_warning_message(message)
self.logger.warning(message)
raise cherrypy.HTTPRedirect('/tvb')
@expose_page
@settings
@context_selected
def step_connectivity(self):
"""
Display menu for Connectivity Footer tab.
"""
template_specification = dict(mainContent="header_menu", section_name='connectivity', controlPage=None,
title="Select an algorithm", displayControl=False, subsection_name='step',
submenu_list=self.connectivity_submenu)
return self.fill_default_attributes(template_specification)
@staticmethod
def _compute_back_link(back_indicator, project):
"""
Based on a simple indicator, compute URL for anchor BACK.
"""
if back_indicator is None:
# This applies to Connectivity and other visualizers when RELAUNCH button is used from Operation page.
back_page_link = None
elif back_indicator == 'burst':
back_page_link = "/burst"
elif back_indicator == 'operations':
back_page_link = '/project/viewoperations/' + str(project.id)
else:
back_page_link = '/project/editstructure/' + str(project.id)
return back_page_link
@expose_page
@settings
@context_selected
def show_group_of_algorithms(self, step_key, algorithm_ids):
project = common.get_current_project()
category = self.algorithm_service.get_category_by_id(step_key)
algorithms = []
for i in algorithm_ids.split(','):
algorithm_id = int(i)
algorithm = self.algorithm_service.get_algorithm_by_identifier(algorithm_id)
algorithm.link = self.get_url_adapter(step_key, algorithm_id)
adapter_instance = self.algorithm_service.prepare_adapter(algorithm)
adapter_form = self.algorithm_service.prepare_adapter_form(adapter_instance=adapter_instance,
project_id=project.id)
algorithm.form = self.render_adapter_form(adapter_form)
algorithms.append(algorithm)
template_specification = dict(mainContent="flow/algorithms_list", algorithms=algorithms,
title="Select an algorithm", section_name=category.displayname.lower())
self._populate_section(algorithms[0], template_specification)
self.fill_default_attributes(template_specification, algorithms[0].group_name)
return template_specification
@expose_page
@settings
@context_selected
def prepare_group_launch(self, group_gid, step_key, algorithm_id, **data):
"""
Receives as input a group gid and an algorithm given by category and id, along
with data that gives the name of the required input parameter for the algorithm.
Having these generate a range of GID's for all the DataTypes in the group and
launch a new operation group.
"""
dt_group = self.project_service.get_datatypegroup_by_gid(group_gid)
datatypes = self.project_service.get_datatypes_from_datatype_group(dt_group.id)
range_param_name = data.pop('range_param_name')
data[RANGE_PARAMETER_1] = range_param_name
data[range_param_name] = ','.join(dt.gid for dt in datatypes)
self.operation_services.group_operation_launch(common.get_logged_user().id, common.get_current_project(),
int(algorithm_id), int(step_key), **data)
redirect_url = self._compute_back_link('operations', common.get_current_project())
raise cherrypy.HTTPRedirect(redirect_url)
@expose_page
@settings
@context_selected
def default(self, step_key, adapter_key, cancel=False, back_page=None, **data):
"""
Render a specific adapter.
'data' are arguments for POST
"""
project = common.get_current_project()
algorithm = self.algorithm_service.get_algorithm_by_identifier(adapter_key)
back_page_link = self._compute_back_link(back_page, project)
if algorithm is None:
raise cherrypy.HTTPRedirect("/tvb?error=True")
if cherrypy.request.method == 'POST' and cancel:
raise cherrypy.HTTPRedirect(back_page_link)
submit_link = self.get_url_adapter(step_key, adapter_key, back_page)
is_burst = back_page not in ['operations', 'data']
if cherrypy.request.method == 'POST':
data[common.KEY_ADAPTER] = adapter_key
template_specification = self.execute_post(project.id, submit_link, step_key, algorithm, **data)
self._populate_section(algorithm, template_specification, is_burst)
else:
template_specification = self.get_template_for_adapter(project.id, step_key, algorithm,
submit_link, is_burst=is_burst)
if template_specification is None:
raise cherrypy.HTTPRedirect('/tvb')
if KEY_CONTROLLS not in template_specification:
template_specification[KEY_CONTROLLS] = None
if common.KEY_SUBMIT_LINK not in template_specification:
template_specification[common.KEY_SUBMIT_LINK] = submit_link
if KEY_CONTENT not in template_specification:
template_specification[KEY_CONTENT] = "flow/full_adapter_interface"
template_specification[common.KEY_DISPLAY_MENU] = False
else:
template_specification[common.KEY_DISPLAY_MENU] = True
template_specification[common.KEY_BACK_PAGE] = back_page_link
template_specification[common.KEY_ADAPTER] = adapter_key
template_specification[ABCDisplayer.KEY_IS_ADAPTER] = True
self.fill_default_attributes(template_specification, algorithm.displayname)
return template_specification
@expose_fragment('form_fields/options_field')
@settings
@context_selected
def get_filtered_datatypes(self, dt_module, dt_class, filters, has_all_option, has_none_option):
"""
Given the name from the input tree, the dataType required and a number of
filters, return the available dataType that satisfy the conditions imposed.
"""
index_class = getattr(sys.modules[dt_module], dt_class)()
filters_dict = json.loads(filters)
for idx in range(len(filters_dict['fields'])):
if filters_dict['values'][idx] in ['True', 'False']:
filters_dict['values'][idx] = string2bool(filters_dict['values'][idx])
filter = FilterChain(fields=filters_dict['fields'], operations=filters_dict['operations'],
values=filters_dict['values'])
project = common.get_current_project()
data_type_gid_attr = DataTypeGidAttr(linked_datatype=REGISTRY.get_datatype_for_index(index_class))
data_type_gid_attr.required = not string2bool(has_none_option)
select_field = TraitDataTypeSelectField(data_type_gid_attr, conditions=filter,
has_all_option=string2bool(has_all_option))
self.algorithm_service.fill_selectfield_with_datatypes(select_field, project.id)
return {'options': select_field.options()}
def execute_post(self, project_id, submit_url, step_key, algorithm, **data):
""" Execute HTTP POST on a generic step."""
errors = None
adapter_instance = ABCAdapter.build_adapter(algorithm)
try:
form = self.algorithm_service.fill_adapter_form(adapter_instance, data, project_id)
if form.validate():
try:
view_model = form.get_view_model()()
form.fill_trait(view_model)
self.context.add_view_model_to_session(view_model)
except NotImplementedError:
self.logger.exception("Form and/or ViewModel not fully implemented for " + str(form))
raise InvalidFormValues("Invalid form inputs! Could not find a model for this form!",
error_dict=form.get_errors_dict())
else:
raise InvalidFormValues("Invalid form inputs! Could not fill algorithm from the given inputs!",
error_dict=form.get_errors_dict())
adapter_instance.submit_form(form)
if issubclass(type(adapter_instance), ABCDisplayer):
adapter_instance.current_project_id = project_id
adapter_instance.user_id = common.get_logged_user().id
result = adapter_instance.launch(view_model)
if isinstance(result, dict):
return result
else:
common.set_error_message("Invalid result returned from Displayer! Dictionary is expected!")
return {}
self.operation_services.fire_operation(adapter_instance, common.get_logged_user(), project_id,
view_model=view_model)
common.set_important_message("Launched an operation.")
except formencode.Invalid as excep:
errors = excep.unpack_errors()
common.set_error_message("Invalid form inputs")
self.logger.warning("Invalid form inputs %s" % errors)
except (OperationException, LaunchException, TraitValueError) as excep1:
self.logger.exception("Error while executing a Launch procedure:" + excep1.message)
common.set_error_message(excep1.message)
except InvalidFormValues as excep2:
message, errors = excep2.display_full_errors()
common.set_error_message(message)
self.logger.warning("%s \n %s" % (message, errors))
template_specification = self.get_template_for_adapter(project_id, step_key, algorithm, submit_url)
if (errors is not None) and (template_specification is not None):
template_specification[common.KEY_ERRORS] = errors
return template_specification
def get_template_for_adapter(self, project_id, step_key, stored_adapter, submit_url, is_burst=True,
is_callout=False):
""" Get Input HTML Interface template or a given adapter """
try:
group = None
category = self.algorithm_service.get_category_by_id(step_key)
title = "Fill parameters for step " + category.displayname.lower()
if group:
title = title + " - " + group.displayname
adapter_instance = self.algorithm_service.prepare_adapter(stored_adapter)
adapter_form = self.algorithm_service.prepare_adapter_form(adapter_instance=adapter_instance,
project_id=project_id)
vm = self.context.get_view_model_from_session()
if vm and type(vm) == adapter_form.get_view_model():
adapter_form.fill_from_trait(vm)
else:
self.context.clean_from_session()
template_specification = dict(submitLink=submit_url,
adapter_form=self.render_adapter_form(adapter_form, is_callout=is_callout),
title=title)
self._populate_section(stored_adapter, template_specification, is_burst)
return template_specification
except OperationException as oexc:
self.logger.error("Inconsistent Adapter")
self.logger.exception(oexc)
common.set_warning_message('Inconsistent Adapter! Please review the link (development problem)!')
return None
@cherrypy.expose
@handle_error(redirect=False)
@check_user
def readserverstaticfile(self, coded_path):
"""
Retrieve file from Local storage, having a File System Path.
"""
try:
with open(url2path(coded_path), "rb") as f:
return f.read()
except Exception as excep:
self.logger.error("Could not retrieve file from path:" + str(coded_path))
self.logger.exception(excep)
def _read_datatype_attribute(self, entity_gid, dataset_name, datatype_kwargs='null', **kwargs):
self.logger.debug("Starting to read HDF5: " + entity_gid + "/" + dataset_name + "/" + str(kwargs))
entity_dt = h5.load_from_gid(entity_gid)
datatype_kwargs = json.loads(datatype_kwargs)
if datatype_kwargs:
for key, value in six.iteritems(datatype_kwargs):
kwargs[key] = load_entity_by_gid(value)
result = getattr(entity_dt, dataset_name)
if callable(result):
if kwargs:
result = result(**kwargs)
else:
result = result()
return result
@expose_json
def invoke_adapter(self, algo_id, method_name, entity_gid, **kwargs):
algorithm = self.algorithm_service.get_algorithm_by_identifier(algo_id)
adapter_instance = ABCAdapter.build_adapter(algorithm)
entity = load_entity_by_gid(entity_gid)
storage_path = self.files_helper.get_project_folder(entity.parent_operation.project,
str(entity.fk_from_operation))
adapter_instance.storage_path = storage_path
method = getattr(adapter_instance, method_name)
if kwargs:
return method(entity_gid, **kwargs)
return method(entity_gid)
def _read_from_h5(self, entity_gid, method_name, datatype_kwargs='null', **kwargs):
self.logger.debug("Starting to read HDF5: " + entity_gid + "/" + method_name + "/" + str(kwargs))
datatype_kwargs = json.loads(datatype_kwargs)
if datatype_kwargs:
for key, value in six.iteritems(datatype_kwargs):
kwargs[key] = load_entity_by_gid(value)
with h5.h5_file_for_gid(entity_gid) as entity_h5:
result = getattr(entity_h5, method_name)
if kwargs:
result = result(**kwargs)
else:
result = result()
return result
@expose_json
def read_from_h5_file(self, entity_gid, method_name, flatten=False, datatype_kwargs='null', **kwargs):
result = self._read_from_h5(entity_gid, method_name, datatype_kwargs, **kwargs)
return self._prepare_result(result, flatten)
@expose_json
def read_datatype_attribute(self, entity_gid, dataset_name, flatten=False, datatype_kwargs='null', **kwargs):
"""
Retrieve from a given DataType a property or a method result.
:returns: JSON representation of the attribute.
:param entity_gid: GID for DataType entity
:param dataset_name: name of the dataType property /method
:param flatten: result should be flatten before return (use with WebGL data mainly e.g vertices/triangles)
Ignored if the attribute is not an ndarray
:param datatype_kwargs: if passed, will contain a dictionary of type {'name' : 'gid'}, and for each such
pair, a load_entity will be performed and kwargs will be updated to contain the result
:param kwargs: extra parameters to be passed when dataset_name is method.
"""
result = self._read_datatype_attribute(entity_gid, dataset_name, datatype_kwargs, **kwargs)
return self._prepare_result(result, flatten)
def _prepare_result(self, result, flatten):
if isinstance(result, numpy.ndarray):
# for ndarrays honor the flatten kwarg and convert to lists as ndarrs are not json-able
if flatten is True or flatten == "True":
result = result.flatten()
return result.tolist()
else:
return result
@expose_numpy_array
def read_binary_datatype_attribute(self, entity_gid, method_name, datatype_kwargs='null', **kwargs):
return self._read_from_h5(entity_gid, method_name, datatype_kwargs, **kwargs)
@expose_fragment("flow/genericAdapterFormFields")
def get_simple_adapter_interface(self, algorithm_id, parent_div='', is_uploader=False):
"""
AJAX exposed method. Will return only the interface for a adapter, to
be used when tabs are needed.
"""
curent_project = common.get_current_project()
is_uploader = string2bool(is_uploader)
template_specification = self.get_adapter_template(curent_project.id, algorithm_id, is_uploader)
template_specification[common.KEY_PARENT_DIV] = parent_div
return self.fill_default_attributes(template_specification)
@expose_fragment("flow/full_adapter_interface")
def getadapterinterface(self, project_id, algorithm_id, back_page=None):
"""
AJAX exposed method. Will return only a piece of a page,
to be integrated as part in another page.
"""
template_specification = self.get_adapter_template(project_id, algorithm_id, False, back_page, is_callout=True)
template_specification["isCallout"] = True
return self.fill_default_attributes(template_specification)
def get_adapter_template(self, project_id, algorithm_id, is_upload=False, back_page=None, is_callout=False):
"""
Get the template for an adapter based on the algo group id.
"""
if not (project_id and int(project_id) and (algorithm_id is not None) and int(algorithm_id)):
return ""
algorithm = self.algorithm_service.get_algorithm_by_identifier(algorithm_id)
if is_upload:
submit_link = "/project/launchloader/" + str(project_id) + "/" + str(algorithm_id)
else:
submit_link = self.get_url_adapter(algorithm.fk_category, algorithm.id, back_page)
template_specification = self.get_template_for_adapter(project_id, algorithm.fk_category, algorithm,
submit_link, is_callout=is_callout)
if template_specification is None:
return ""
template_specification[common.KEY_DISPLAY_MENU] = not is_upload
return template_specification
@cherrypy.expose
@handle_error(redirect=True)
@context_selected
def reloadoperation(self, operation_id, **_):
"""Redirect to Operation Input selection page, with input data already selected."""
operation = OperationService.load_operation(operation_id)
# Reload previous parameters in session
adapter_instance = ABCAdapter.build_adapter(operation.algorithm)
view_model = adapter_instance.load_view_model(operation)
self.context.add_view_model_to_session(view_model)
# Display the inputs tree for the current op
category_id = operation.algorithm.fk_category
algo_id = operation.fk_from_algo
raise cherrypy.HTTPRedirect("/flow/" + str(category_id) + "/" + str(algo_id))
@cherrypy.expose
@handle_error(redirect=True)
@context_selected
def reload_burst_operation(self, operation_id, is_group, **_):
"""
Find out from which burst was this operation launched. Set that burst as the selected one and
redirect to the burst page.
"""
is_group = int(is_group)
if not is_group:
operation = OperationService.load_operation(int(operation_id))
else:
op_group = ProjectService.get_operation_group_by_id(operation_id)
first_op = ProjectService.get_operations_in_group(op_group)[0]
operation = OperationService.load_operation(int(first_op.id))
self.simulator_controller.copy_simulator_configuration(operation.burst.id)
raise cherrypy.HTTPRedirect("/burst/")
@expose_json
def cancel_or_remove_operation(self, operation_id, is_group, remove_after_stop=False):
"""
Stop the operation given by operation_id. If is_group is true stop all the
operations from that group.
"""
operation_id = int(operation_id)
is_group = int(is_group) != 0
if isinstance(remove_after_stop, str):
remove_after_stop = bool(remove_after_stop)
return self.simulator_controller.cancel_or_remove_operation(operation_id, is_group, remove_after_stop)
def fill_default_attributes(self, template_dictionary, title='-'):
"""
Overwrite base controller to add required parameters for adapter templates.
"""
if common.KEY_TITLE not in template_dictionary:
template_dictionary[common.KEY_TITLE] = title
if common.KEY_PARENT_DIV not in template_dictionary:
template_dictionary[common.KEY_PARENT_DIV] = ''
if common.KEY_PARAMETERS_CONFIG not in template_dictionary:
template_dictionary[common.KEY_PARAMETERS_CONFIG] = False
template_dictionary[common.KEY_INCLUDE_RESOURCES] = 'flow/included_resources'
BaseController.fill_default_attributes(self, template_dictionary)
return template_dictionary
NEW_SELECTION_NAME = 'New selection'
def _get_available_selections(self, datatype_gid):
"""
selection retrieval common to selection component and connectivity selection
"""
curent_project = common.get_current_project()
selections = self.algorithm_service.get_selections_for_project(curent_project.id, datatype_gid)
names, sel_values = [], []
for selection in selections:
names.append(selection.ui_name)
sel_values.append(selection.selected_nodes)
return names, sel_values
@expose_fragment('visualizers/commons/channel_selector_opts')
def get_available_selections(self, **data):
sel_names, sel_values = self._get_available_selections(data['datatype_gid'])
return dict(namedSelections=list(zip(sel_names, sel_values)))
@expose_json
def store_measure_points_selection(self, ui_name, **data):
"""
Save a MeasurePoints selection (new or update existing entity).
"""
if ui_name and ui_name != self.NEW_SELECTION_NAME:
sel_project_id = common.get_current_project().id
# client sends integers as strings:
selection = json.dumps([int(s) for s in json.loads(data['selection'])])
datatype_gid = data['datatype_gid']
self.algorithm_service.save_measure_points_selection(ui_name, selection, datatype_gid, sel_project_id)
return [True, 'Selection saved successfully.']
else:
error_msg = self.NEW_SELECTION_NAME + " or empty name are not valid as selection names."
return [False, error_msg]
@expose_fragment("visualizers/pse_discrete/inserting_new_threshold_spec_bar")
def create_row_of_specs(self, count):
return dict(id_increment_count=count)
@expose_json
def store_pse_filter(self, config_name, **data):
# this will need to be updated in such a way that the expose_json actually gets used
## also this is going to be changed to be storing through the flow service and dao. Stay updated
try:
##this is to check whether there is already an entry in the
for i, (name, Val) in enumerate(self.PSE_names_list):
if name == config_name:
self.PSE_names_list[i] = (config_name, (
data['threshold_value'] + "," + data['threshold_type'] + "," + data[
'not_presence'])) # replace the previous occurence of the config name, and carry on.
self.get_pse_filters()
return [True, 'Selected Text stored, and selection updated']
self.PSE_names_list.append(
(config_name, (data['threshold_value'] + "," + data['threshold_type'] + "," + data['not_presence'])))
except AttributeError:
self.PSE_names_list = [
(config_name, (data['threshold_value'] + "," + data['threshold_type'] + "," + data['not_presence']))]
self.get_pse_filters()
return [True, 'Selected Text stored, and selection updated']
@expose_fragment("visualizers/commons/channel_selector_opts")
def get_pse_filters(self):
try:
return dict(namedSelections=self.PSE_names_list)
except AttributeError:
return dict(namedSelections=[]) # this will give us back atleast the New Selection option in the select
except:
raise
@expose_json
def store_exploration_section(self, val_range, step, dt_group_guid):
"""
Launching method for further simulations.
"""
range_list = [float(num) for num in val_range.split(",")]
step_list = [float(num) for num in step.split(",")]
datatype_group_ob = self.project_service.get_datatypegroup_by_gid(dt_group_guid)
operation_grp = datatype_group_ob.parent_operation_group
operation_obj = OperationService.load_operation(datatype_group_ob.fk_from_operation)
parameters = {}
range1name, range1_dict = json.loads(operation_grp.range1)
range2name, range2_dict = json.loads(operation_grp.range2)
parameters[RANGE_PARAMETER_1] = range1name
parameters[RANGE_PARAMETER_2] = range2name
# change the existing simulator parameters to be min max step types
range1_dict = {constants.ATT_MINVALUE: range_list[0],
constants.ATT_MAXVALUE: range_list[1],
constants.ATT_STEP: step_list[0]}
range2_dict = {constants.ATT_MINVALUE: range_list[2],
constants.ATT_MAXVALUE: range_list[3],
constants.ATT_STEP: step_list[1]}
parameters[range1name] = json.dumps(range1_dict) # this is for the x axis parameter
parameters[range2name] = json.dumps(range2_dict) # this is for the y axis parameter
OperationService().group_operation_launch(common.get_logged_user().id, common.get_current_project(),
operation_obj.algorithm.id, operation_obj.algorithm.fk_category,
**parameters)
return [True, 'Stored the exploration material successfully']