Question: Bowtie2/BWA-MEM remain waiting to run for several days in Main server. Is it only in my account?
gravatar for David Wilson
3.4 years ago by
David Wilson30
David Wilson30 wrote:

Hi all,

I've been trying to run Bowtie2 and BWA-MEM with several datasets and in different histories in the Galaxy Main Server. I waited for several Bowtie2/BWA-MEM jobs to start for 2 days with no success. Other tools work as expected. Has anyone had the same problem? I other words, is it a problem with the tools?





bwa software error bowtie • 1.0k views
ADD COMMENTlink modified 3.4 years ago by Jennifer Hillman Jackson25k • written 3.4 years ago by David Wilson30
gravatar for Jennifer Hillman Jackson
3.4 years ago by
United States
Jennifer Hillman Jackson25k wrote:


There were some issues with the long running cluster Stampede this week that is linked to job delays and certain failures. Even if you started these jobs on the default cluster, it is possible they were moved to Stampede due to the size of the job.

In short, leave current jobs in the queue so that they will execute and give any failed jobs one re-run before reporting a problem with the tool (unless it clearly fails for memory or wall-time: Support see section 2.8). Both are the quickest paths for getting work done on http//

Best, Jen, Galaxy team

ADD COMMENTlink written 3.4 years ago by Jennifer Hillman Jackson25k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 171 users visited in the last hour