Hello Milad,

You have this query set up optimally for these tools - it is always best to put the largest dataset "second" in the form. As the data is processed, the second file goes into memory and the first is compared against it. This can complete for system resources when large files are processed, but the specifications you note for your computer are within the range we recommend for personal usage and these standard tools.

If the job does fail for a memory reason, then you have a few choices. The first is to break up the target (second file) into smaller datasets and run the query against those individually, then merge the results. The second is to consider a larger cloud instance:
htttp://getgalaxy.org/cloud

Best,

Jen
Galaxy team

On 4/20/13 5:44 AM, Milad Bastami wrote:

Hi every body

I tried to perform a joining task on two interval dataset. The 1st had 1500 region and the second one about 2 million region. The job is still running (more than 4 hours) and it has affected system performance. I'm not sure it is normal or not. If not, I don't know it's the matter of galaxy limitations or my pc's hardware configurations. Any help would be appreciated.

I am running galaxy local on bio-linux7 (win8 / bio-linux7 dual boot system)

system configurations :

CPU : core i7 9610 (6M)

RAM : 8 G

linux swap : 8 G

linux root : >700 G

Milad Bastamis,

Department of Medical Genetics

Shahid Beheshti's university of Medical Science
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