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