Hi David, Trinity is still under development and really shouldn't be on the Test instance yet (in fact, we are removing it). Very sorry about any confusion. It is a known that assembly tools would be very useful for many of our users (starting from a few sources: SAMTools Pileup, de novo RNA-seq) and are working towards tools/solutions in the near term. To be alerted when new tools are available, you can follow our News RSS feed http://galaxyproject.org/wiki/News. New tools are always announced in the News Brief, in an email to mailing list subscribers, and sometimes Tweeted. Thanks for using Galaxy! Best, Jen Galaxy team On 9/13/11 2:03 PM, David Joly wrote:

I want to run Trinity on the "test" instance of Galaxy, but there seems to be a problem. The analysis complete very quickly and I've got no assembled transcripts. In the log file created by Trinity, there is one line: /var/spool/torque/mom_priv/jobs/1204985.thumper.g2.bx.psu.edu.SC <http://1204985.thumper.g2.bx.psu.edu.SC>: 11: Trinity.pl: not found Any idea? David

___________________________________________________________ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists, please use the interface at:

http://lists.bx.psu.edu/

-- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/Support