cli_tag if None, doesn't ignore that in cli_command construction : Jupyter Interface #77
Description
Describe the bug
For output folder construction, if no flag is available and you are using a dummy one with cli_tag : None breaks in Jupyter Notebook interface.
It should ignore the cli_tag argument pair itself!
Have you searched existing issues?
- I have searched and found no existing issues
Reproduction
n/a
Screenshot
No response
Logs/StackTrace
Logs
Traceback (most recent call last):
File "/tmp/ipykernel_157/3047536816.py", line 9, in <module>
res = subprocess.run(cli_command.value, shell=True, check=True, stdout=None, stderr=subprocess.PIPE)
File "/instanseg/.pixi/envs/cpuenv/lib/python3.9/subprocess.py", line 528, in run
raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command 'python /instanseg/instanseg/scripts/inference.py --image_path input_images --model_folder brightfield_nuclei --device cpu --pixel_size 0.5 --recursive False --ignore_segmented False None /bilayers/input_images --tile_size 512 --batch_size 1 --save_geojson False' returned non-zero exit status 2.
Bilayers Version
0.1
System Info
n/a