Existing directories aren't allowed as parameters to -o, but the error message doesn't tell the user that the directory already exists, just that it's a directory.
$ sourcetracker2 gibbs -o sourcetracker
Usage: sourcetracker2 gibbs [OPTIONS]
Error: Invalid value for "-o" / "--output_dir": Path "sourcetracker" is a directory.
@wdwvt1 asked me to help out with this as he hasn't had success sorting it out.
_Copied from original issue: biota/sourcetracker2internal#25
From @gregcaporaso on March 1, 2016 22:32
Existing directories aren't allowed as parameters to
-o, but the error message doesn't tell the user that the directory already exists, just that it's a directory.@wdwvt1 asked me to help out with this as he hasn't had success sorting it out.
_Copied from original issue: biota/sourcetracker2internal#25