Question: (Closed) number of threads for cufflinks transcript assembly
gravatar for hassangiahi
8 months ago by
hassangiahi0 wrote:

Hello everyone I'm using cufflinks to build a transcript.gtf file on ubuntu server. i used this command for building it :

sudo ./cufflinks --max-bundle-length 10000000 -o /mnt/cuffliks_denovo/SRR500880/ -p 16 -g /mnt/Homo_sapiens.GRCh37.87.gtf -u /mnt/Maping_output/SRR500880/SRR500880Aligned.sortedByCoord.out.bam

but my problem is : when i used -p 16 or -p 160 or -p 2000 or even ignored it,There was no change at the time of the analysis... in the other words, It does not matter that those Argument is used or not,and it take a long times(about 4-8 days)... ... what is my problem ??? Where is my mistake?

*my instance details is : * The bam file size used is 5 gigabytes * i used a instance with 64G RAM and 1T H.D.D and 16CPU. Thank you for advising me Giahi

ADD COMMENTlink written 8 months ago by hassangiahi0

Hello hassangiahi!

We believe that this post does not fit the main topic of this site.

This forum is best for question related to using Galaxy ( For general Bioinformatics questions, try

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

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ADD REPLYlink written 8 months ago by Jennifer Hillman Jackson24k
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