itmat / rum

RNA-Seq Unified Mapper
http://cbil.upenn.edu/RUM
MIT License
26 stars 4 forks source link

rum_runner says it uses a default --prefix, but it doesn't #187

Open amirkarger opened 9 years ago

amirkarger commented 9 years ago

Version 2.0.5_06

The man page for rum_runner says:

By default it will operate on the indexes installed at the same location as this script. For example, if the script is located at C<~/rum/bin/rum_indexes>, it will assume that config files are in C<~/rum/conf> and indexes are in C<~/rum/indexes>. You can tell it to use another location with the B<--prefix> option.

However, the code dies with an error message if you don't input --prefix.