Cannot find output when running docker container with cromwell
Hi there, I currently have a method that I now run with Docker and was hoping to put on Firecloud. The way the docker is currently structured, I run a wrapper script within the container and that writes output files to a directory within the container, and I then run a docker cp to get the output files on my local system. In trying to write a WDL, I am able to run the process (stdout log shows output from the script running) but not extract the output (get a file not found error) when I specify the output file using the path within the docker container. I am not sure how to either mount a volume so that the Cromwell can read the outputs or modify my docker so things are written somewhere else.