new version of redefine_temp_location throws an error

[sophiamaedler]

starting with version 1.5.0

---------------------------------------------------------------------------
TypeError                                 Traceback (most recent call last)
Cell In[7], line 1
----> 1 stitcher.stitch()

File ~/Documents/GitHub/scPortrait/src/scportrait/tools/stitch/_stitch.py:434, in Stitcher.stitch(self)
    432 """Generate the stitched mosaic."""
    433 self._perform_alignment()
--> 434 self._generate_mosaic()

File ~/Documents/GitHub/scPortrait/src/scportrait/tools/stitch/_stitch.py:429, in Stitcher._generate_mosaic(self)
    427 # ensure dtype is set correctly
    428 self.mosaic.dtype = np.uint16
--> 429 self._assemble_mosaic()

File ~/Documents/GitHub/scPortrait/src/scportrait/tools/stitch/_stitch.py:397, in Stitcher._assemble_mosaic(self)
    392 print(f"assembling mosaic with shape {shape}")
    394 # initialize tempmmap array to save assemled mosaic to
    395 # if no cache is specified the tempmmap will be created in the outdir
--> 397 self._create_cache()
    399 # create empty mmap array to store assembled mosaic
    400 hdf5_path = create_empty_mmap(shape, dtype=np.uint16, tmp_dir_abs_path=self.TEMP_DIR_NAME)

File ~/Documents/GitHub/scPortrait/src/scportrait/tools/stitch/_stitch.py:167, in Stitcher._create_cache(self)
    165 """Create a temporary cache directory for storing intermediate files during stitching."""
    166 if self.cache is None:
--> 167     TEMP_DIR_NAME = redefine_temp_location(self.outdir)
    168 else:
    169     TEMP_DIR_NAME = redefine_temp_location(self.cache)

File ~/mambaforge/envs/scportrait_test/lib/python3.12/site-packages/alphabase/io/tempmmap.py:117, in redefine_temp_location(path)
    114 _clear()
    116 # cleanup old temporary directory
--> 117 shutil.rmtree(TEMP_DIR_NAME, ignore_errors=True)
    119 # create new tempfile at desired location
    120 temp_dir_name = _init_temp_dir(prefix=os.path.join(path, "temp_mmap_"))

File ~/mambaforge/envs/scportrait_test/lib/python3.12/shutil.py:759, in rmtree(path, ignore_errors, onerror, onexc, dir_fd)
    757 try:
    758     while stack:
--> 759         _rmtree_safe_fd(stack, onexc)
    760 finally:
    761     # Close any file descriptors still on the stack.
    762     while stack:

File ~/mambaforge/envs/scportrait_test/lib/python3.12/shutil.py:669, in _rmtree_safe_fd(stack, onexc)
    667 assert func is os.lstat
    668 if orig_entry is None:
--> 669     orig_st = os.lstat(name, dir_fd=dirfd)
    670 else:
    671     orig_st = orig_entry.stat(follow_symlinks=False)

TypeError: lstat: path should be string, bytes or os.PathLike, not type