Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Mapping of small dataset takes too long
0
gravatar for scotan
2.6 years ago by
scotan • 0
scotan • 0 wrote:

Dear Galaxy Team,

Do you know if there is a problem with NGS mapping of fastqsanger files in Galaxy? I have tried to map PE reads of 20MB with different aligners, and after 2 hour I am still waiting... I have done the same procedure one day ago and it worked OK..

Any idea?

Thanks in advance, AS
bwa alignment bowtie galaxy • 622 views
ADD COMMENT • link •
modified 2.6 years ago • written 2.6 years ago by scotan • 0
0
gravatar for Jennifer Hillman Jackson
2.6 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

The jobs were likely queued. Have you allowed any to run for longer? Try that if not.

Thanks, Jen, Galaxy team
ADD COMMENT • link written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k
0
gravatar for scotan
2.6 years ago by
scotan • 0
scotan • 0 wrote:

It worked finally. It was that it took much longer than what I was expected.

Thank you, AS
ADD COMMENT • link written 2.6 years ago by scotan • 0

When the server is busy, or a user has many jobs queued in their history, jobs can take up to a day to process (and occasionally longer). Glad this worked out for you!

See "Grey" datasets here: https://wiki.galaxyproject.org/Support#Dataset_status_and_how_jobs_execute

Jen

ADD REPLY • link written 2.6 years ago by Jennifer Hillman Jackson ♦ 25k
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 168 users visited in the last hour