# HG changeset patch
# User ufz
# Date 1749847633 0
# Node ID 0ebede62d62d1c5b43bbf9ea63b92e01991014dd
# Parent  b1f969b7c5279ddfeb8694bb0a1da2031b98aa79
planemo upload for repository https://github.com/Helmholtz-UFZ/galaxy-tools/tree/main/tools/omero commit 3f4e79a4e8350481f3c8d70bc64f01b4cb0a4bf0

diff -r b1f969b7c527 -r 0ebede62d62d omero_metadata_upload.py
--- a/omero_metadata_upload.py	Tue Apr 08 15:12:24 2025 +0000
+++ b/omero_metadata_upload.py	Fri Jun 13 20:47:13 2025 +0000
@@ -19,6 +19,9 @@
                                           headers=True)
                 tb_dict = ez.get_table(conn, id_tb_ann)
                 return tb_dict
+            elif ann_type == "attachement":
+                id_file_attach = ez.post_file_annotation(conn, file_path=data_dict, ns=an_name, object_type=obj_type, object_id=int(did))
+                return id_file_attach
         except Exception as e:
             log_error(f"Error uploading metadata for {obj_type} with ID {did}: {str(e)}")
             return None
@@ -41,6 +44,8 @@
         data_dict = df.to_dict(orient='records')
     elif ann_type == "KV":
         data_dict = {col: df[col].iloc[0] for col in df.columns}
+    elif ann_type == "attachement":
+        data_dict = ann_file
 
     try:
         with ez.connect(user, pws, "", host, port, secure=True) as conn:
@@ -86,7 +91,7 @@
                                                               'well ', 'image'],
                         help='Type of OMERO object')
     parser.add_argument('--did', type=int, help='ID of the object (if it exists)')
-    parser.add_argument('--ann_type', required=True, choices=['table', 'KV'], help='Annotation type')
+    parser.add_argument('--ann_type', required=True, choices=['table', 'KV', "attachement"], help='Annotation type')
     parser.add_argument('--ann_file', required=True, help='Path to the annotation file')
     parser.add_argument('--an_name', required=True, help='Namespace or title for the annotation')
     parser.add_argument('--log_file', default='metadata_import_log.txt', help='Path to the log file')
diff -r b1f969b7c527 -r 0ebede62d62d test-data/output_attachement_import.txt
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output_attachement_import.txt	Fri Jun 13 20:47:13 2025 +0000
@@ -0,0 +1,1 @@
+SUCCESS: Successfully uploaded metadata for dataset with ID 1. Result: 12