def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
# FIXME: This really should be a PATCH operation.
prx = DataElementAttributeProxy(data)
self_entity = self.get_entity()
changed_num_reps = prx.number_replicates != self.number_replicates
emt_id = prx.experiment_metadata_type.get('id')
changed_em_type = emt_id != self.experiment_metadata_type.id
if changed_em_type or changed_num_reps:
if changed_num_reps:
self_entity.number_replicates = prx.number_replicates
if changed_em_type:
self_entity.experiment_metadata_type = \
get_experiment_metadata_type(emt_id)
if not self_entity.experiment_design is None:
# invalidate data to force a fresh upload of the XLS file
self_entity.experiment_design.experiment_design_racks = []
self_entity.experiment_design.worklist_series = None
if not self_entity.lab_iso_request is None:
shape = self_entity.lab_iso_request.rack_layout.shape
new_layout = RackLayout(shape=shape)
self_entity.lab_iso_request.rack_layout = new_layout
self_entity.lab_iso_request.owner = ''
changed_sp = self_entity.subproject.id != prx.subproject.get('id')
if changed_sp:
new_sp = \
url_to_resource(prx.subproject.get('href')).get_entity()
self_entity.subproject = new_sp
self_entity.label = prx.label
# Perform appropriate Trac updates.
if not self_entity.lab_iso_request is None:
if self.iso_request.owner == STOCKMANAGEMENT_USER:
ticket_activator = IsoRequestTicketActivator(
experiment_metadata=self_entity)
self.__run_trac_tool(ticket_activator,
'Could not update the ticket: %s.')
else:
if changed_em_type or changed_num_reps:
trac_updater = IsoRequestTicketDescriptionRemover(
experiment_metadata=self_entity,
changed_num_replicates=changed_num_reps,
changed_em_type=changed_em_type)
else:
url = 'http://thelma/public//LOUICe.html#' \
+ self.path
iso_url = 'http://thelma/public//LOUICe.html#' \
+ self.iso_request.path
trac_updater = IsoRequestTicketDescriptionUpdater(
experiment_metadata=self_entity,
experiment_metadata_link=url,
iso_request_link=iso_url)
self.__run_trac_tool(trac_updater,
'Could not update the ticket: %s.')
else:
Member.update(self, data)
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
# FIXME: This really should be a PATCH operation.
prx = DataElementAttributeProxy(data)
self_entity = self.get_entity()
changed_num_reps = prx.number_replicates != self.number_replicates
emt_id = prx.experiment_metadata_type.get('id')
changed_em_type = emt_id != self.experiment_metadata_type.id
if changed_em_type or changed_num_reps:
if changed_num_reps:
self_entity.number_replicates = prx.number_replicates
if changed_em_type:
self_entity.experiment_metadata_type = \
get_experiment_metadata_type(emt_id)
if not self_entity.experiment_design is None:
# invalidate data to force a fresh upload of the XLS file
self_entity.experiment_design.experiment_design_racks = []
self_entity.experiment_design.worklist_series = None
if not self_entity.lab_iso_request is None:
shape = self_entity.lab_iso_request.rack_layout.shape
new_layout = RackLayout(shape=shape)
self_entity.lab_iso_request.rack_layout = new_layout
self_entity.lab_iso_request.owner = ''
changed_sp = self_entity.subproject.id != prx.subproject.get('id')
if changed_sp:
new_sp = \
url_to_resource(prx.subproject.get('href')).get_entity()
self_entity.subproject = new_sp
self_entity.label = prx.label
# Perform appropriate Trac updates.
if not self_entity.lab_iso_request is None:
if self.iso_request.owner == STOCKMANAGEMENT_USER:
ticket_activator = IsoRequestTicketActivator(
experiment_metadata=self_entity)
self.__run_trac_tool(ticket_activator,
'Could not update the ticket: %s.')
else:
if changed_em_type or changed_num_reps:
trac_updater = IsoRequestTicketDescriptionRemover(
experiment_metadata=self_entity,
changed_num_replicates=changed_num_reps,
changed_em_type=changed_em_type)
else:
url = 'http://thelma/public//LOUICe.html#' \
+ self.path
iso_url = 'http://thelma/public//LOUICe.html#' \
+ self.iso_request.path
trac_updater = IsoRequestTicketDescriptionUpdater(
experiment_metadata=self_entity,
experiment_metadata_link=url,
iso_request_link=iso_url)
self.__run_trac_tool(trac_updater,
'Could not update the ticket: %s.')
else:
Member.update(self, data)
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
prx = DataElementAttributeProxy(data)
loc = self.get_entity()
try:
rack = prx.rack
except AttributeError:
loc.checkout_rack()
else:
loc.checkin_rack(rack.get_entity())
else:
Member.update(self, data)
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
prx = DataElementAttributeProxy(data)
loc = self.get_entity()
try:
rack = prx.rack
except AttributeError:
loc.checkout_rack()
else:
loc.checkin_rack(rack.get_entity())
else:
Member.update(self, data)
def data(self):
data_map = OrderedDict()
for child in self.iterchildren():
idx = child.tag.find('}')
if idx != -1:
tag = child.tag[idx + 1:]
else:
tag = child.tag
if IDataElement.providedBy(child): # pylint:disable=E1101
value = self.__check_for_link(child)
else:
attr = self.mapping.get_attribute(tag)
value = XmlConverterRegistry.convert_from_representation(
child.text,
attr.value_type)
data_map[tag] = value
return data_map
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
prx = DataElementAttributeProxy(data)
try:
exp_nodes = prx.experiments
except AttributeError:
pass
else:
for exp_node in exp_nodes:
exp_id = exp_node.id
try:
exp_rack_nodes = exp_node.experiment_racks
except AttributeError:
pass
else:
if len(exp_rack_nodes) > 0:
self.__update_experiment_racks(
exp_rack_nodes, exp_id)
else:
JobMember.update(self, data)
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
prx = DataElementAttributeProxy(data)
try:
exp_nodes = prx.experiments
except AttributeError:
pass
else:
for exp_node in exp_nodes:
exp_id = exp_node.id
try:
exp_rack_nodes = exp_node.experiment_racks
except AttributeError:
pass
else:
if len(exp_rack_nodes) > 0:
self.__update_experiment_racks(exp_rack_nodes,
exp_id)
else:
JobMember.update(self, data)
def map_to_resource(self, data_element, resource=None):
"""
Maps the given data element to a new resource or updates the given
resource.
:raises ValueError: If :param:`data_element` does not provide
:class:`everest.representers.interfaces.IDataElement`.
"""
if not IDataElement.providedBy(data_element): # pylint:disable=E1101
raise ValueError('Expected data element, got %s.' % data_element)
if resource is None:
coll = \
create_staging_collection(data_element.mapping.mapped_class)
agg = coll.get_aggregate()
agg.add(data_element)
if IMemberDataElement.providedBy(data_element): # pylint: disable=E1101
ent = next(iter(agg))
resource = \
data_element.mapping.mapped_class.create_from_entity(ent)
else:
resource = coll
else:
resource.update(data_element)
return resource
def map_to_resource(self, data_element, resource=None):
"""
Maps the given data element to a new resource or updates the given
resource.
:raises ValueError: If :param:`data_element` does not provide
:class:`everest.representers.interfaces.IDataElement`.
"""
if not IDataElement.providedBy(data_element): # pylint:disable=E1101
raise ValueError('Expected data element, got %s.' % data_element)
if resource is None:
coll = \
create_staging_collection(data_element.mapping.mapped_class)
agg = coll.get_aggregate()
agg.add(data_element)
if IMemberDataElement.providedBy(data_element): # pylint: disable=E1101
ent = next(iter(agg))
resource = \
data_element.mapping.mapped_class.create_from_entity(ent)
else:
resource = coll
else:
resource.update(data_element)
return resource
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
raise SyntaxError('Should not get here.')
else:
Member.update(self, data)
def update(self, data):
if IDataElement.providedBy(data): # pylint: disable=E1101
raise SyntaxError('Should not get here.')
else:
Member.update(self, data)
