Set user permissions for new departments based on company

erpnext/hr/doctype/department/department.json

@@ -143,6 +143,38 @@
    "translatable": 0, 
    "unique": 0
   }, 
+  {
+   "allow_bulk_edit": 0, 
+   "allow_in_quick_entry": 0, 
+   "allow_on_submit": 0, 
+   "bold": 0, 
+   "collapsible": 0, 
+   "columns": 0, 
+   "fieldname": "disabled", 
+   "fieldtype": "Check", 
+   "hidden": 0, 
+   "ignore_user_permissions": 0, 
+   "ignore_xss_filter": 0, 
+   "in_filter": 0, 
+   "in_global_search": 0, 
+   "in_list_view": 0, 
+   "in_standard_filter": 0, 
+   "label": "Disabled", 
+   "length": 0, 
+   "no_copy": 0, 
+   "permlevel": 0, 
+   "precision": "", 
+   "print_hide": 0, 
+   "print_hide_if_no_value": 0, 
+   "read_only": 0, 
+   "remember_last_selected_value": 0, 
+   "report_hide": 0, 
+   "reqd": 0, 
+   "search_index": 0, 
+   "set_only_once": 0, 
+   "translatable": 0, 
+   "unique": 0
+  }, 
   {
    "allow_bulk_edit": 0, 
    "allow_in_quick_entry": 0, 
@@ -447,7 +479,7 @@
  "issingle": 0, 
  "istable": 0, 
  "max_attachments": 0, 
- "modified": "2018-06-13 15:50:04.611365", 
+ "modified": "2018-06-29 14:24:32.774721", 
  "modified_by": "Administrator", 
  "module": "HR", 
  "name": "Department", 

erpnext/patches.txt

@@ -551,3 +551,5 @@ erpnext.patches.v11_0.update_total_qty_field
 erpnext.patches.v11_0.update_sales_partner_type
 erpnext.patches.v11_0.rename_asset_adjustment_doctype
 execute:frappe.db.sql("update `tabDesktop Icon` set type = 'module' where module_name = 'Restaurant'")
+erpnext.patches.v11_0.set_salary_component_properties
+erpnext.patches.v11_0.set_user_permissions_for_department

erpnext/patches/v11_0/set_user_permissions_for_department.py

@@ -0,0 +1,17 @@
+import frappe
+
+def execute():
+    user_permissions = frappe.db.sql("""select name, for_value from `tabUser Permission`
+        where allow='Department'""", as_dict=1)
+    for d in user_permissions:
+        user_permission = frappe.get_doc("User Permission", d.name)
+        for new_dept in frappe.db.sql("""select name from tabDepartment 
+            where ifnull(company, '') != '' and department_name=%s""", d.for_value):
+            try:
+                new_user_permission = frappe.copy_doc(user_permission)
+                new_user_permission.for_value = new_dept[0]
+                new_user_permission.save()
+            except frappe.DuplicateEntryError:
+                pass
+    
+    frappe.db.sql("update tabDepartment set disabled=1 where ifnull(company, '') = ''")