PureCLIP does not finish job and keeps saying: job currently running.

usegalaxy.eu support
1

Hi all,

I am experiencing a problem with the tool Pureclip on the Galaxy / CLIP-explorer server. The problem is that the tool has been running for 4-5 days now with the notice: Job currently running. Previously I have already restarted the job after 1 week of waiting with job currently running. I was wondering why it could take so long and what I can do to speed things up.
I have uploaded .BAM files for the CLIP and input data and also a reference genome Hg19 in the Fasta format. Could someone please help me with this issue?

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1 Like
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Hey. PureCLIP sometimes takes really long to train the peak calling model. Try to reduce the training on important chromosomes. There is a field where you can do that: Genomic chromosomes to learn HMM parameters. Reduce it maybe to three chromosomes.

So try this first and really pick chromosomes which are important for your study.

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Narrowing the search field helped to complete the job faster. Thanks