fixing typing as string issue

Author: yibeichan

example-specs/task/fsl_utils_ExtractROI.yaml

@@ -0,0 +1,20 @@
+task_name: ExtractROI
+nipype_module: nipype.interfaces.fsl.utils
+output_requirements:
+    roi_file: [in_file]
+output_templates:
+    roi_file: "{in_file}_trim"
+inputs_drop:
+    - crop_list
+doctest:
+    in_file: test.nii.gz
+    t_min: 0
+    t_size: 3
+    roi_file: test_trim.nii.gz
+    cmdline: fslroi test.nii.gz test_trim.nii.gz 0 3
+tests_inputs:
+    - in_file: test.nii.gz
+      t_min: 0
+      t_size: 1
+tests_outputs:
+    - roi_file

nipype2pydra/task.py

@@ -329,8 +329,8 @@ def types_to_names(spec_fields):
         spec_str += f"    output_spec = {self.task_name}_output_spec\n"
         spec_str += f"    executable='{self.nipype_interface._cmd}'\n"
 
-        # for tp_repl in self.TYPE_REPLACE:
-        #     spec_str = spec_str.replace(*tp_repl)
+        for tp_repl in self.TYPE_REPLACE:
+            spec_str = spec_str.replace(*tp_repl)
 
         spec_str_black = black.format_file_contents(
             spec_str, fast=False, mode=black.FileMode()