get_label_files#

cellpose_omni.io.get_label_files(img_names, label_filter='_cp_masks', img_filter='', ext=None, dir_above=False, subfolder='', parent=None, flows=False, links=False)[source]#

Get the corresponding labels and flows for the given file images. If no extension is given, looks for TIF, TIFF, and PNG. If multiple are found, the first in the list is returned. If extension is given, no checks for file existence are made - useful for finding nonstandard output like txt or npy.

Parameters

  • img_names (list, str) -- list of full image file paths

  • label_filter (str) -- the label filter sufix, defaults to _cp_masks can be _flows, _ncolor, etc.

  • ext (str) -- the label extension can be .tif, .png, .txt, etc.

  • img_filter (str) -- the image filter suffix, e.g. _img

  • dir_above (bool) -- whether or not masks are stored in the image parent folder

  • subfolder (str) -- the name of the subfolder where the labels are stored

  • parent (str) -- parent folder or list of folders where masks are stored, if different from images

  • flows (Bool) -- whether or not to search for and return stored flows

  • links (bool) -- whether or not to search for and return stored link files

Return type

list of all absolute label paths (str)