enabled manual override of loaded project IDs

xnat_ingest/cli/upload.py

@@ -131,6 +131,14 @@ def __str__(self):
         "The keyword or tag of the DICOM field to extract the XNAT imaging session ID from "
     ),
 )
+@click.option(
+    "--project-id",
+    type=str,
+    default=None,
+    help=(
+        "Override the project ID read from the DICOM headers"
+    )
+)
 @click.option(
     "--assoc-files-glob",
     type=str,
@@ -211,6 +219,7 @@ def upload(
     project_field: str,
     subject_field: str,
     session_field: str,
+    project_id: str | None,
     delete: bool,
     log_file: Path,
     log_emails: LoggerEmail,
@@ -253,6 +262,7 @@ def upload(
         project_field=project_field,
         subject_field=subject_field,
         session_field=session_field,
+        project_id=project_id,
     )
 
     xnat_repo = Xnat(

xnat_ingest/session.py

@@ -176,6 +176,7 @@ def load(
         project_field: str = "StudyID",
         subject_field: str = "PatientID",
         session_field: str = "AccessionNumber",
+        project_id: str | None = None,
     ) -> ty.List["ImagingSession"]:
         """Loads all imaging sessions from a list of DICOM files
 
@@ -200,6 +201,9 @@ def load(
         session_field : str
             the name of the DICOM field that is to be interpreted as the corresponding
             XNAT project
+        project_id : str
+            Override the project ID loaded from the DICOM header (useful when invoking 
+            manually)
 
         Returns
         -------
@@ -255,7 +259,7 @@ def get_id(field):
                     dicoms={str(s["SeriesNumber"]): s for s in session_dicom_series},
                     associated_file_fspaths=associated_file_fspaths,
                     associated_files_pattern=associated_files_pattern,
-                    project_id=get_id(project_field),
+                    project_id=(project_id if project_id else get_id(project_field)),
                     subject_id=get_id(subject_field),
                     session_id=get_id(session_field),
                 )