add support for CHIRP data

Author: Gahhh

docs/trial_folder_structure/CHIRP.md

@@ -0,0 +1,34 @@
+.
+└── center/
+    ├── Patient Dose Files/
+    │   └── Patient 1/
+    │       └── files...
+    ├── Patient Planning CTs/
+    │   └── Patient 1/
+    │       └── Dicom Planning CT files...
+    ├── Patient Structure Sets/
+    │   └── Patient 1/
+    │       └── Dicom Structure files...
+    ├── Patient Plans/
+    │   └── Patient 1/
+    │       └── Dicom Plan files...
+    ├── Patient CBCT Images/
+    │   └── Patient 1/
+    │       ├── Fx1/
+    │       │   └── Dicom CBCT Files...
+    │       └── Fx2/
+    │           └── Dicom CBCT Files...
+    ├── Couch Registration Files/
+    │   └── Patient 1/
+    │       ├── Fx1/
+    │       │   └── Dicom Registration Files...
+    │       └── Fx2/
+    │           └── Dicom Registration Files...
+    └── Patient Images/
+        └── Patient 1/
+            ├── Fx1/
+            │   ├── kV images
+            │   └── Scan file
+            └── Fx2/
+                ├── kV images
+                └── Scan file

src/admin_console/DataImporter.py

@@ -376,7 +376,9 @@ def insertCHIRPDataIntoDatabase(self) -> Tuple[bool, str]:
             "patient_dose_files":"rt_dose_path",
             "patient_planning_cts":"rt_ct_path",
             "patient_structure_sets":"rt_structure_path",
-            "patient_plans":"rt_plan_path"
+            "patient_plans":"rt_plan_path",
+            "patient_cbct_images":"dvh_track_path",
+            "couch_registration_files":"metrics_path"
         }
         if self.fileInfo['level'] == "prescription":
             folderPath = self.fileInfo["folder_path"][0]
@@ -388,8 +390,15 @@ def insertCHIRPDataIntoDatabase(self) -> Tuple[bool, str]:
                 self.markPacketAsImported()
                 return True, "Success"
         elif self.fileInfo['level'] == "fraction":
-            pass
-
+            for fraction in self.fileInfo["fraction"]:
+                fractionDetail = self.dbAdapter.getFractionIdAndName(self.metadata["patient_trial_id"], fraction)
+                if fractionDetail:
+                    fractionId = fractionDetail[0][0]
+                    folderPath = self.fileInfo['db_file_name'][fraction]
+                    queryStr = f"UPDATE images SET {dbTableMapping[fileType]} = \'{folderPath}\' WHERE fraction_id = \'{fractionId}\'"
+                    self.dbAdapter.executeUpdateOnImageDB(queryStr)
+            self.markPacketAsImported()
+            return True, "Success"
 
 def prepareArgumentParser():
     argParser = argparse.ArgumentParser(description="data Importer Tool")

src/data_service/templates/upload_paths_template.json

@@ -24,9 +24,9 @@
 	"image_folder": "/{clinical_trial}/{test_centre}/Patient Images/Projection images/Patient {centre_patient_no}/",
 	"trajectory_log_folder": "/{clinical_trial}/{test_centre}/Trajectory Logs/Patient {centre_patient_no}/",
 	"patient_dose_files":"/{clinical_trial}/{test_centre}/Patient Dose Files/Patient {centre_patient_no}/",
-	"patient_planning_cts":"/{clinical_trial}/{test_centre}/Patient Planning CTs/Patient {centre_patient_no}",
-	"patient_structure_sets":"/{clinical_trial}/{test_centre}/Patient Structure Sets/Patient {centre_patient_no}",
-	"patient_plans":"/{clinical_trial}/{test_centre}/Patient Plans/Patient {centre_patient_no}",
+	"patient_planning_cts":"/{clinical_trial}/{test_centre}/Patient Planning CTs/Patient {centre_patient_no}/",
+	"patient_structure_sets":"/{clinical_trial}/{test_centre}/Patient Structure Sets/Patient {centre_patient_no}/",
+	"patient_plans":"/{clinical_trial}/{test_centre}/Patient Plans/Patient {centre_patient_no}/",
 	"patient_cbct_images":"/{clinical_trial}/{test_centre}/Patient CBCT Images/Patient {centre_patient_no}/",
 	"couch_registrations_files":"/{clinical_trial}/{test_centre}/Couch Registrations/Patient {centre_patient_no}/"
 }