I added a final working directory (/data/) in the Dockerfile, because I found that when using the click.argument parser to collect files based on wild glob expansion (i.e. *.sqMass), I would get an error on failing to find the path to files when calling pyprophet from docker. So I explicitly set the end working directory of the docker image to /data/ in the Dockerfile, and then bind the local directory to /data/ when running from docker.
docker run -it --rm -v $PWD:/data/ pyprophet/pyprophet:2.1.10 pyprophet filter --in /data/merged.osw *.sqMass
Usage: pyprophet filter [OPTIONS] [SQMASSFILES]...
Try 'pyprophet filter --help' for help.
Error: Invalid value for '[SQMASSFILES]...': Path 'test.sqMass' does not exist.
I added a final working directory (/data/) in the Dockerfile, because I found that when using the
click.argumentparser to collect files based on wild glob expansion (i.e. *.sqMass), I would get an error on failing to find the path to files when calling pyprophet from docker. So I explicitly set the end working directory of the docker image to /data/ in the Dockerfile, and then bind the local directory to /data/ when running from docker.