fix for checking file with different extensions in tf_2dunet

Signed-off-by: yes <[email protected]>

openfl-workspace/tf_2dunet/src/nii_reader.py

@@ -212,24 +212,29 @@ def nii_reader(brain_path, task, channels_last=True,
 
     # check that all appropriate files are present
     file_root = brain_path.split('/')[-1] + '_'
-    extension = '.nii.gz'
+    # check for all possible extensions
+    extensions = ['.nii.gz', '.nii']
 
     # record files needed
     # needed mask files are currntly independent of task
-    need_files_oneof = list_files(file_root, extension, msk_names)
-    if normalization != 'modes_together':
-        need_files_all = list_files(file_root, extension, task_to_img_modes[task])
-    else:
-        need_files_all = list_files(file_root, extension, img_modes)
-
-    correct_files = np.all([
-        (reqd in files)
-        for reqd in need_files_all
-    ]) and np.sum([
-        (reqd in files)
-        for reqd in need_files_oneof
-    ]) == 1
-
+    need_files_oneof = None
+    need_files_all = None
+    for extension in extensions:
+        need_files_oneof = list_files(file_root, extension, msk_names)
+        if normalization != 'modes_together':
+            need_files_all = list_files(file_root, extension, task_to_img_modes[task])
+        else:
+            need_files_all = list_files(file_root, extension, img_modes)
+
+        correct_files = np.all([
+            (reqd in files)
+            for reqd in need_files_all
+        ]) and np.sum([
+            (reqd in files)
+            for reqd in need_files_oneof
+        ]) == 1
+        if correct_files:
+            break
     if not correct_files:
         return None, None