def _linkUser(self, user):
"""Set the UID of the current Contact in the User properties and update
all relevant own properties.
"""
logger.warn("MONKEY PATCHING __linkUser")
KEY = "linked_contact_uid"
username = user.getId()
contact = self.getContactByUsername(username)
# User is linked to another contact (fix in UI)
if contact and contact.UID() != self.UID():
raise ValueError("User '{}' is already linked to Contact '{}'".format(
username, contact.Title()))
# User is linked to multiple other contacts (fix in Data)
if isinstance(contact, list):
raise ValueError(
"User '{}' is linked to multiple Contacts: '{}'".format(
username, ",".join(map(lambda x: x.Title(), contact))))
# XXX: Does it make sense to "remember" the UID as a User property?
tool = user.getTool()
try:
user.getProperty(KEY)
except ValueError:
logger.info("Adding User property {}".format(KEY))
tool.manage_addProperty(KEY, "", "string")
# Set the UID as a User Property
uid = self.UID()
user.setMemberProperties({KEY: uid})
logger.info("Linked Contact UID {} to User {}".format(
user.getProperty(KEY), username))
# Set the Username
self.setUsername(user.getId())
# Update the Email address from the user
self.setEmailAddress(user.getProperty("email"))
# somehow the `getUsername` index gets out of sync
self.reindexObject()
# N.B. Local owner role and client group applies only to client
# contacts, but not lab contacts.
if IClient.providedBy(self.aq_parent):
# Grant local Owner role
self._addLocalOwnerRole(username)
# Add user to "Clients" group
self._addUserToGroup(username, group="Clients")
# SENAITE.HEALTH-specific!
# Add user to "InternalClients" group
if is_internal_client(self.aq_parent):
self._addUserToGroup(username, group="InternalClients")
return True
def Import(self):
print "EOOO"
s_t = ''
c_t = 'lab'
bucket = {}
pc = getToolByName(self.context, 'portal_catalog')
bsc = getToolByName(self.context, 'bika_setup_catalog')
# collect up all values into the bucket
for row in self.get_rows(3):
c_t = row['Client_title'] if row['Client_title'] else 'lab'
if c_t not in bucket:
bucket[c_t] = {}
s_t = row['SampleType_title'] if row['SampleType_title'] else s_t
if s_t not in bucket[c_t]:
bucket[c_t][s_t] = []
service = bsc(portal_type='AnalysisService', title=row['service'])
if not service:
service = bsc(portal_type='AnalysisService',
getKeyword=row['service'])
try:
service = service[0].getObject()
bucket[c_t][s_t].append({
'keyword': service.getKeyword(),
'min': row.get('min','0'),
'max': row.get('max','0'),
'minpanic': row.get('minpanic','0'),
'maxpanic': row.get('maxpanic','0'),
'error': row.get('error','0'),
})
except IndexError:
warning = "Error with service name %s on sheet %s. Service not uploaded."
logger.warning(warning, row.get('service', ''), self.sheetname)
# write objects.
for c_t in bucket:
if c_t == 'lab':
folder = self.context.bika_setup.bika_analysisspecs
else:
folder = pc(portal_type='Client', title=c_t)
if (not folder or len(folder) != 1):
logger.warn("Client %s not found. Omiting client specifications." % c_t)
continue
folder = folder[0].getObject()
for s_t in bucket[c_t]:
resultsrange = bucket[c_t][s_t]
sampletype = bsc(portal_type='SampleType', title=s_t)[0]
_id = folder.invokeFactory('AnalysisSpec', id=tmpID())
obj = folder[_id]
obj.edit(
title=sampletype.Title,
ResultsRange=resultsrange)
obj.setSampleType(sampletype.UID)
obj.unmarkCreationFlag()
renameAfterCreation(obj)
def set_field_value(instance, field_name, value):
"""Sets the value to a Schema field
"""
if field_name == "id":
logger.warn("Assignment of id is not allowed")
return
logger.info("Field {} = {}".format(field_name, repr(value)))
instance = api.get_object(instance)
field = instance.Schema() and instance.Schema().getField(field_name) or None
if not field:
api.fail("No field {} found for {}".format(field_name, repr(instance)))
field.set(instance, value)
def translate_i18n(i18n_msg):
"""Safely translate and convert to UTF8, any zope i18n msgid returned from
senaite health's message factory
"""
text = to_unicode(i18n_msg)
try:
request = api.get_request()
domain = getattr(i18n_msg, "domain", "senaite.health")
text = translate(text, domain=domain, context=request)
except UnicodeDecodeError:
logger.warn("{} couldn't be translated".format(text))
return to_utf8(text)
def get_portal_type(self, query):
"""Return the portal type from the query passed-in
"""
portal_types = self.get_portal_types(query)
if not portal_types:
logger.warn("No portal types: {}".format(repr(portal_types)))
return None
if len(portal_types) > 1:
logger.warn("Multiple portal types: {}".format(repr(portal_types)))
return None
return portal_types[0]
def update_workflow(workflow_id, settings):
logger.info("Updating workflow '{}' ...".format(workflow_id))
wf_tool = api.get_tool("portal_workflow")
workflow = wf_tool.getWorkflowById(workflow_id)
if not workflow:
logger.warn("Workflow '{}' not found [SKIP]".format(workflow_id))
states = settings.get("states", {})
for state_id, values in states.items():
update_workflow_state(workflow, state_id, values)
transitions = settings.get("transitions", {})
for transition_id, values in transitions.items():
update_workflow_transition(workflow, transition_id, values)
def __call__(self):
plone.protect.CheckAuthenticator(self.request)
PatientUID = self.request.get('PatientUID', '')
PatientID = self.request.get('PatientID', '')
ret = {
'PatientID': '',
'PatientUID': '',
'ClientPatientID': '',
'ClientID': '',
'ClientUID': '',
'ClientTitle': '',
'ClientSysID': '',
'PatientFullname': '',
'PatientBirthDate': '',
'PatientGender': 'dk',
'PatientMenstrualStatus': ''
}
proxies = None
if PatientUID:
try:
bpc = getToolByName(self.context, CATALOG_PATIENTS)
proxies = bpc(UID=PatientUID)
except ParseError:
pass
elif PatientID:
logger.warn("Search of Patient by ID!!!")
try:
bpc = getToolByName(self.context, CATALOG_PATIENTS)
proxies = bpc(id=PatientID)
except ParseError:
pass
if not proxies:
return json.dumps(ret)
patient = proxies[0]
ret = {
'PatientID': patient.getPatientID,
'PatientUID': patient.UID,
'ClientPatientID': patient.getClientPatientID,
'ClientUID': patient.getPrimaryReferrerUID,
'ClientTitle': patient.getPrimaryReferrerTitle,
'ClientSysID': patient.getPrimaryReferrerID,
'PatientFullname': patient.Title,
'PatientBirthDate': self.ulocalized_time(patient.getBirthDate),
'PatientGender': patient.getGender,
'PatientMenstrualStatus': patient.getMenstrualStatus
}
return json.dumps(ret)
def get_client_aware_html_image(obj):
"""Renders an icon based on the client the object belongs to
"""
if is_from_external_client(obj):
icon_info = ("lock.png", _("Private, from an external client"))
elif is_from_internal_client(obj):
if api.get_review_status(obj) == "shared":
icon_info = ("share.png", _("Shared, from an internal client"))
else:
icon_info = ("share_lock.png",
_("From an internal client, but not shared"))
else:
logger.warn("No client assigned for {}".format(repr(obj)))
icon_info = ("exclamation_red.png", _("No client assigned"))
return get_html_image(icon_info[0], title=icon_info[1])
def _unlinkUser(self):
"""Remove the UID of the current Contact in the User properties and
update all relevant own properties.
"""
logger.warn("MONKEY PATCHING __unlinkUser")
KEY = "linked_contact_uid"
# Nothing to do if no user is linked
if not self.hasUser():
return False
user = self.getUser()
username = user.getId()
# Unset the UID from the User Property
user.setMemberProperties({KEY: ""})
logger.info("Unlinked Contact UID from User {}".format(
user.getProperty(KEY, "")))
# Unset the Username
self.setUsername(None)
# Unset the Email
self.setEmailAddress(None)
# somehow the `getUsername` index gets out of sync
self.reindexObject()
# N.B. Local owner role and client group applies only to client
# contacts, but not lab contacts.
if IClient.providedBy(self.aq_parent):
# Revoke local Owner role
self._delLocalOwnerRole(username)
# Remove user from "Clients" group
self._delUserFromGroup(username, group="Clients")
# SENAITE.HEALTH-specific!
# Remove user from "InternalClients" group
if is_internal_client(self.aq_parent):
self._delUserFromGroup(username, group="InternalClients")
return True
def move_patients_to_clients(portal):
"""
Moves patients with a Client assigned to the folder of the Client they
belong to.
"""
logger.info("Moving Patients inside Clients...")
# We'll need this to update workflow mappings just after the move
wf_tool = api.get_tool("portal_workflow")
workflow = wf_tool.getWorkflowById("senaite_health_patient_workflow")
# Allow Patient content type inside Clients
allow_patients_inside_clients(portal)
# Map patient uids against batches' clients
patients_to_clients = dict()
query = dict(portal_type="Batch")
for batch_brain in api.search(query, BIKA_CATALOG):
client_id = batch_brain.getClientID
if not client_id:
continue
patient_uid = batch_brain.getPatientUID
if not patient_uid:
continue
client_ids = patients_to_clients.get(patient_uid, [])
client_ids.append(client_id)
patients_to_clients[patient_uid] = list(set(client_ids))
# Look through Patients and move them inside Clients
start = time.time()
clients_map = dict()
patients_folder = portal.patients
patients_origin = aq_inner(patients_folder)
total = patients_folder.objectCount()
for num, (p_id, patient) in enumerate(patients_folder.items()):
if num and num % 100 == 0:
end = time.time()
logger.info(
"Moving Patients inside Clients: {}/{}: ({:.2f}s)".format(
num, total, (end - start)))
start = time.time()
client_uid = patient.getField("PrimaryReferrer").getRaw(patient)
if client_uid:
# Update role mappings first (for workflow changes to take effect)
workflow.updateRoleMappingsFor(patient)
# Try to find out the Client from the Batch(es) assigned to patient
client_ids = patients_to_clients.get(api.get_uid(patient), [])
if len(client_ids) > 1:
# Clinical Cases for this Patient belong to different clients,
# so this Patient must remain not bound to any Client
logger.warn("Patient with client assigned, but batches from "
"others: {}".format(p_id))
else:
client = clients_map.get(client_uid, None)
if client is None:
client = api.get_object_by_uid(client_uid)
clients_map[client_uid] = client
if client_ids and client_ids[0] != client.getClientID():
# Assigned client does not match with those from the batches
logger.warn(
"Patient with client assigned that does not "
"match with the client from batches: {}".format(p_id))
else:
# Move Patient inside the client
#cp = patients_folder.manage_cutObjects(p_id)
#client.manage_pasteObjects(cp)
move_obj(patient, client)
logger.info("Moving Patients inside Clients [DONE]")