list_files returns inappropriate fov files

[bryjcannon]

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Describe the bug

When trying to run segmentation, an error propped up where a mask file that didn't exist was being loaded for csv writing. After troubleshooting, the problem occurs in alpineer's io_utils.list_files code. In this example, while only file names with 'R6C1' were desired, files with R6C10' were also being extracted due to the way io_utils.list_files` matches substrings in file names.

Expected behavior
io_utils.list_files currently finds files using the code below based on a matching substring (substr)
matches = [file for file in files if any([substr in file for substr in substrs])] -> will return files with both 'R6C1' and 'R6C10'

To Reproduce
Ping me for access to my mask files.

[bryjcannon]

Proposed solution below:
Change the current list comprehension in io_utils.list_files from the below:
matches = [file for file in files if any([substr in file for substr in substrs])]
To this regular expression which uses a word boundary instead of string matching alone to find the desired files.

    # Create a regular expression pattern from substrs with word boundaries
    pattern = '|'.join(re.escape(substr) + r'\b' for substr in substrs)

    # Use re.search to check if any of the substrings exactly match in the file names
    matches = [file for file in files if re.search(pattern, file)]