Question: Megablast Wrapper
0
gravatar for Henrikki Almusa
10.1 years ago by
Henrikki Almusa110 wrote:
Hi, Just wanted to let you know that I had some problems with using the Megablast wrapper in the 'tools/metag' directory. I put the tool to run a sge cluster, but ran into problem. Blast didn't create any output at all but reported successful run in galaxy website. The output and error files were empty (outside of output file having the commandline to be executed). The problem was that megablast kept on segfaulting in the cluster. After testing the blast command manually (from which I removed the '-a 8' option without thinking about that) it run without problems. Finally I realised this and removed the option '-a 8' from the wrapper and got a correct result into galaxy as well. The cluster that I use here has 2 cores on each node. Regards, -- Henrikki Almusa
galaxy • 910 views
ADD COMMENTlink modified 8.5 years ago by Anton Nekrutenko1.7k • written 10.1 years ago by Henrikki Almusa110
0
gravatar for Anton Nekrutenko
8.5 years ago by
Penn State
Anton Nekrutenko1.7k wrote:
Andre: Why are you doing steps 4 - 7 if you already have tabular output in Galaxy? What are you trying to do? Thanks, anton Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
ADD COMMENTlink written 8.5 years ago by Anton Nekrutenko1.7k
0
gravatar for Anton Nekrutenko
8.5 years ago by
Penn State
Anton Nekrutenko1.7k wrote:
Andre: "Filter and Sort" section on Galaxy tool pane has the tools that will help you. However, if you tell me a bit more about what you are trying to do I can probably be a bit more specific. Thanks, anton Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
ADD COMMENTlink written 8.5 years ago by Anton Nekrutenko1.7k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 169 users visited in the last hour