Genome generation with STAR

[mtiwaridros]

Hi
I want to generate a genome using STAR for subsequent steps.
I got the genome.fa file from UCSC for my organism (dm).
I ran:

/home/STAR --runMode genomeGenerate --genomeDir /media/star_pipe --genomeFastaFiles genome.fa /media/star_pipe runThread 4

However it has been 15 h now and it is stuck at:

Starting to generate Genome files

Does it usually take this long or am I doing something wrong?
I have a quad-core CPU with 16 GB RAm, and do not see any unsusal SWAP activity. The CPU usage for STAR is 25-30%.

Any suggestions/corrections will be appreciated.

Thanks.
Manu

[GenoMax]

See this: http://seqanswers.com/forums/showthread.php?t=31815

You may have the runThread option incorrectly specified, should be "--runThreadN 4"

Have you checked to see if the index files are increasing in size?

[mtiwaridros]

Hi GenoMax

I figured it out.
And its the same as you pointed.

Now I have my built genome file.

Thanks.

Best
Manu