unable to run test data

[narib]

here I run the test
"mgefinder workflow denovo ../test_workdir"

[bielskin]

Not sure if you are still having this issue, but it is caused by a shell if statement in the snakefile being written for bash instead of zsh. For a quick fix all you need to do is adjust the if statement for zsh syntax. If you navigate to the snakefile shown at the path in the red "CalledProcessError:" text, edit the if condition to have two brackets on either side ("[[ statement ]]" instead of "[ statement ]") like shown and save the file.