Question: Jobs remian grey for > 24 h
gravatar for vsafavi
27 days ago by
vsafavi0 wrote:


My TopHat and HISAT2 jobs are remianing grey for more than 24 h. Is this normal or so,ething is going wrong? What can I do to make it work?

Thank you,

fasta upload • 58 views
ADD COMMENTlink modified 25 days ago • written 27 days ago by vsafavi0

Hello, The queued jobs are using an input custom genome dataset that is still running through NormalizeFasta. In fact, both of the NormalizeFasta jobs in this history have been queued for over 24 hrs. This is a problem. More feedback soon and thanks for reporting the issue. Jen, Galaxy team

ADD REPLYlink modified 27 days ago • written 27 days ago by Jennifer Hillman Jackson24k
gravatar for Jennifer Hillman Jackson
27 days ago by
United States
Jennifer Hillman Jackson24k wrote:


Fasta dataset 57 should be reloaded (the data became corrupted). We know why now and will be addressing the use-case.

NormalizeFasta worked on dataset 158 (the other fasta custom genome) with a rerun for me. Try that as well first. If the job does not start up within 10 minutes or so, then that dataset should be reloaded as well.

All downstream tools (Tophat, HISAT2) should then be rerun using the newly upload/formatted data.

The dataset(s) with problems and the stalled downstream jobs using those as inputs can be permanently deleted to recover quota space in your account.

Thanks again for reporting the problem! Jen, Galaxy team

ADD COMMENTlink written 27 days ago by Jennifer Hillman Jackson24k
gravatar for vsafavi
25 days ago by
vsafavi0 wrote:

Dear Jen,

The rerun of data set 161 (the other fasta custom genome after NormalizeFasta) did not work for me - remained grey for TopHat and HISAT2.

I am not sure what you mean with reload. Shall I upload the custome genome data again? Many thanks,

ADD COMMENTlink written 25 days ago by vsafavi0
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