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Question: Galaxy not producing resluts
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gravatar for joffritm
2.1 years ago by
joffritm • 0
joffritm • 0 wrote:

Hello,

I've been trying to map reads using the BWA-MEM tool for the last two days, and Galaxy consistently gets hung up on this step. I've sat for hours waiting for the analyses. Is there something wrong with tool, or the user (me)? I'm working on a coursera project, and this is one of the earlier steps in the process. I can't seem to get past it. Is there a lot of traffic using the site? I keep getting an exclamation mark and an indication that all of the data isn't available. And even when it passes this step, it just sits in the que. Any help/advice would be extremely appreciated.

bwa-mem bwa delays galaxy jobs • 510 views
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modified 2.1 years ago by Jennifer Hillman Jackson ♦ 25k • written 2.1 years ago by joffritm • 0
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gravatar for Jennifer Hillman Jackson
2.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Other users have reported server delays for high-compute jobs. See details here plus troubleshooting advice: https://biostar.usegalaxy.org/p/20253/

Consider sending in a bug report - we can help guide you through the tutorial if server delays (busy clusters) is not the core issue.

Best, Jen, Galaxy team
ADD COMMENT • link written 2.1 years ago by Jennifer Hillman Jackson ♦ 25k
0
gravatar for Jennifer Hillman Jackson
2.1 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Update: The cluster fix has been made and jobs are dispatching normally. Queued jobs will execute - no need to delete/rerun. Tools that require more resources are sent to a busier cluster. That queue is expected to have some continued delays until the backlog of jobs is processed (up to a few days).

Thanks for reporting the problem and for your patience, Jen, Galaxy team
ADD COMMENT • link written 2.1 years ago by Jennifer Hillman Jackson ♦ 25k
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