Hi all,
This is a strange error, still lingering around on our Galaxy. From time to time, some tools fail, with the same error:
job stderr: /bin/sh: fastx_clipper: command not found
So I log in as the user Galaxy, and run the tools successfully on the commandline. The solution is to restart the complete machine. I run CentOS6.3 with Galaxy distro 12fcd068b12e (Okt 23 release).
Apparently, the PATH of the Galaxy session gets corrupted during running Galaxy, and I don't know where or how. Anybody a hint? Perhaps somebody knows how to reset the PATH of the current sessions where Galaxy is running as?
Thanks,
Joachim
galaxy-dev@lists.galaxyproject.org