                  retval.append(subbatch)
          return retval
  
      def _get_refeed_filter_masks(self,
                                   subbatches: List[AlignerBatch],
                                   original_masks: Optional[np.ndarray] = None) -> np.ndarray:
          """ Obtain the boolean mask array for masking out failed re-feed results if filter refeed
          has been selected
  
          Parameters
          ----------
 
</s> remove                                     subbatches: List[AlignerBatch],
 </s> add                                     subbatches: list[AlignerBatch], </s> remove                       batch: "AlignerBatch",
                      skip: Optional[Union[np.ndarray, List[int]]] = None) -> np.ndarray:
 </s> add                       batch: AlignerBatch,
                      skip: np.ndarray | list[int] | None = None) -> np.ndarray: </s> remove     def write(self, filename: str, image: List[BytesIO]) -> None:
 </s> add     def write(self, filename: str, image: list[BytesIO]) -> None: </s> remove     def write(self, filename: str, image: List[bytes]) -> None:
 </s> add     def write(self, filename: str, image: list[bytes]) -> None: </s> remove         retval: List[AlignerBatch] = []
 </s> add         retval: list[AlignerBatch] = []
                                 subbatches: list[AlignerBatch],
                                 original_masks: np.ndarray | None = None) -> np.ndarray:
                  retval.append(subbatch)
          return retval
  
      def _get_refeed_filter_masks(self,
                                 subbatches: list[AlignerBatch],
                                 original_masks: np.ndarray | None = None) -> np.ndarray:
                                 subbatches: list[AlignerBatch],
                                 original_masks: np.ndarray | None = None) -> np.ndarray:
          """ Obtain the boolean mask array for masking out failed re-feed results if filter refeed
          has been selected
  
          Parameters
          ----------
keep keep keep keep replace replace keep keep keep keep keep
 Rebase code (#1326)

* Remove tensorflow_probability requirement

* setup.py - fix progress bars

* requirements.txt: Remove pre python 3.9 packages

* update apple requirements.txt

* update INSTALL.md

* Remove python<3.9 code

* setup.py - fix Windows Installer

* typing: python3.9 compliant

* Update pytest and readthedocs python versions

* typing fixes

* Python Version updates
  - Reduce max version to 3.10
  - Default to 3.10 in installers
  - Remove incompatible 3.11 tests

* Update dependencies

* Downgrade imageio dep for Windows

* typing: merge optional unions and fixes

* Updates
  - min python version 3.10
  - typing to python 3.10 spec
  - remove pre-tf2.10 code
  - Add conda tests

* train: re-enable optimizer saving

* Update dockerfiles

* Update setup.py
  - Apple Conda deps to setup.py
  - Better Cuda + dependency handling

* bugfix: Patch logging to prevent Autograph errors

* Update dockerfiles

* Setup.py - Setup.py - stdout to utf-8

* Add more OSes to github Actions

* suppress mac-os end to end test 
plugins/extract/align/_base/aligner.py