Using ants.core.ants_image.ANTsImage instead of ants.ANTsImage in…

… case `ANTsImage` is not exported

DESCRIPTION

@@ -1,6 +1,6 @@
 Package: rpyANTs
 Title: An Alternative Advanced Normalization Tools ('ANTs')
-Version: 0.0.3.9009
+Version: 0.0.3.9010
 Authors@R: 
     person("Zhengjia", "Wang", email = "[email protected]", 
             role = c("aut", "cre"))

inst/rpyants/rpyants/registration/halpern.py

@@ -61,9 +61,9 @@ def halpern_coregister_ct_mri(fixed_path, moving_path, outprefix, verbose=True):
 #   Register MRI to template for Casey Halpern's lab.
 #   '''
 #   # Make sure images are valid
-#   if not isinstance(fixed, ants.ANTsImage):
+#   if not isinstance(fixed, ants.core.ants_image.ANTsImage):
 #     raise Exception("`fixed` is not an instance of `ANTsImage`")
-#   if not isinstance(moving, ants.ANTsImage):
+#   if not isinstance(moving, ants.core.ants_image.ANTsImage):
 #     raise Exception("`moving` is not an instance of `ANTsImage`")
 #   # use forward slash to avoid escaping issues on windows
 #   outprefix = normalize_path(outprefix, sep="/")

inst/rpyants/rpyants/registration/yael.py

@@ -636,7 +636,7 @@ def get_template_mapping(self, template_name : str, native_type : str = "T1w", r
             }
         }
 
-    def transform_image_from_template(self, path : Union[str, ants.ANTsImage], template_name : str, native_type : str = "T1w", interpolator="nearestNeighbor", verbose : bool=True):
+    def transform_image_from_template(self, path : Union[str, ants.core.ants_image.ANTsImage], template_name : str, native_type : str = "T1w", interpolator="nearestNeighbor", verbose : bool=True):
         '''
         Map the image from the template to the native image.
 
@@ -652,7 +652,7 @@ def transform_image_from_template(self, path : Union[str, ants.ANTsImage], templ
         @return: The mapped image.
         @rtype: ANTsImage
         '''
-        if isinstance(path, ants.ANTsImage):
+        if isinstance(path, ants.core.ants_image.ANTsImage):
             moving_img = path
         else:
             if not os.path.exists(path):
@@ -671,7 +671,7 @@ def transform_image_from_template(self, path : Union[str, ants.ANTsImage], templ
         )
         return mapped_img
 
-    def transform_image_to_template(self, path : Union[str, ants.ANTsImage], template_name : str, template_path : Union[str, ants.ANTsImage], native_type : str = "T1w", interpolator="nearestNeighbor", verbose : bool=True):
+    def transform_image_to_template(self, path : Union[str, ants.core.ants_image.ANTsImage], template_name : str, template_path : Union[str, ants.core.ants_image.ANTsImage], native_type : str = "T1w", interpolator="nearestNeighbor", verbose : bool=True):
         '''
         Map the image from the native image to the template.
 
@@ -693,13 +693,13 @@ def transform_image_to_template(self, path : Union[str, ants.ANTsImage], templat
         map_info = self.get_template_mapping(template_name = template_name, native_type = native_type)
         if map_info is None:
             raise FileNotFoundError(f"Missing mapping from {native_type} to {template_name}. Please register the image to the template first.")
-        if isinstance(path, ants.ANTsImage):
+        if isinstance(path, ants.core.ants_image.ANTsImage):
             moving_img = path
         else:
             if not os.path.exists(path):
                 raise FileNotFoundError(f"Invalid image path: {path}")
             moving_img = ants.image_read(path)
-        if isinstance(template_path, ants.ANTsImage):
+        if isinstance(template_path, ants.core.ants_image.ANTsImage):
             template_img = template_path
         else:
             if not os.path.exists(template_path):