11 Dec
2015
11 Dec
'15
3 p.m.
Greetings, I feel this must be simple, but I cannot find it. I'm making a wrapper for a tool that requires the output directory to be specified on the command line of a python script (otherwise it uses the path of the input file for the multiple output files). How can I pass the working directory to the tool from the xml file? <command interpreter="python"> the_tool.py -o $DIRECTORY_WHERE_GALAXY_RUNS_THE_TOOL This is similar to from_work_dir in the outputs -- but I need the path of the directory that does not include any file names. Thanks! Todd Oakley, UCSB