Looks like Tophat is choking when trying to parse your Bowtie version.
You'll want to verify that a recent version of Bowtie2 (using Tophat2 in Galaxy
requires Bowtie2) is installed and is in your Galaxy user's path. Once these
requirements are met, you should be able to use Tophat2.
Using To
Howdy,
I am getting the following error with tophat:
Error in tophat:
[2012-12-27 15:08:40] Beginning TopHat run (v2.0.5)
---
[2012-12-27 15:08:40] Checking for Bowtie
Traceback (most recent call last):
File "/usr/bin/tophat", line 4035, in
sy
