topaz convert: when image_name is numbers like "001", one error

[IAMCHF]

particles.txt like this:

image_name x_coord y_coord score 002 83 100 3.9545307 002 934 594 3.4888413 002 684 667 3.4556582

when i use command :

topaz convert ./particles.txt --verbose 1 --output ./particles.csv

Traceback (most recent call last): File "/home/ubuntu/.conda/envs/topaz/bin/topaz", line 33, in sys.exit(load_entry_point('topaz-em==0.2.5', 'console_scripts', 'topaz')()) File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/topaz/main.py", line 148, in main args.func(args) File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/topaz/commands/convert.py", line 217, in main file_utils.write_coordinates(output, coords, format=to_form, boxsize=boxsize, image_ext=image_ext, suffix=suffix) File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/topaz/utils/files.py", line 198, in write_coordinates write_via_csv(path, table) File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/topaz/utils/files.py", line 81, in write_via_csv filename = table['image_name'].apply(lambda x: x + '.png') # need to add .png extension File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/pandas/core/series.py", line 4213, in apply mapped = lib.map_infer(values, f, convert=convert_dtype) File "pandas/_libs/lib.pyx", line 2403, in pandas._libs.lib.map_infer File "/home/ubuntu/.conda/envs/topaz/lib/python3.6/site-packages/topaz/utils/files.py", line 81, in filename = table['image_name'].apply(lambda x: x + '.png') # need to add .png extension TypeError: unsupported operand type(s) for +: 'int' and 'str'

to solve this problem, modify the code on line 169 in topaz/utils/files.py:

change particles = pd.read_csv(path, sep='\t') to

particles = pd.read_csv(path, sep='\t', dtype={'image_name': str})

[tbepler]

Thanks for reporting this. Happy to accept a PR with the bugfix!

[DarnellGranberry]

Implemented. Thanks!