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Question: Cufflinks on large files
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gravatar for everettchu21
2.5 years ago by
everettchu21 • 0
everettchu21 • 0 wrote:

Hi all,

I'm using Cufflinks from NGS:RNA analysis on a data set that's about 30gigs with the Galaxy main. I'm trying to run it on a collection, but it's been over a day now and the file has yet to turn 'yellow', or showing that galaxy is working on it. Is there anyway to expedite the process? Thanks a lot.

rna-seq main galaxy cufflinks • 655 views
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modified 2.5 years ago by Jennifer Hillman Jackson ♦ 25k • written 2.5 years ago by everettchu21 • 0
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gravatar for Jennifer Hillman Jackson
2.5 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

I see several jobs in your account in progress (executing, "yellow"). As these complete, the next jobs will start in the order queued.

https://wiki.galaxyproject.org/Support#Dataset_status_and_how_jobs_execute

Best, Jen, Galaxy team
ADD COMMENT • link written 2.5 years ago by Jennifer Hillman Jackson ♦ 25k

Hi Jen,

I restarted the cufflinks tool and it has yet to start working. After several hours it still says that it is a new dataset and not all of its data are available yet. Could you take a look? Thanks.

ADD REPLY • link written 2.5 years ago by everettchu21 • 0

I think I might have found the issue. For the Tophat output of the accepted hits it states that An error occurred setting the metadata for this dataset Set it manually or retry auto-detection https://usegalaxy.org/datasets/bbd44e69cb8906b55c479037c0a6ab9a/edit. When I try to set the database/build it just states that Attributes updated, but metadata could not be changed because this dataset is currently being used as input or output. You must cancel or wait for these jobs to complete before changing metadata. Could you take a look?

ADD REPLY • link written 2.5 years ago by everettchu21 • 0
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