Peera,

Turning off bias correction can significantly shorten Cufflinks runtime.

If you still encounter this error, you'll want to use a local or cloud instance of Galaxy:

https://bitbucket.org/galaxy/galaxy-central/wiki/GetGalaxy
http://wiki.g2.bx.psu.edu/Admin/Cloud

Good luck,
J.

On Jan 30, 2012, at 3:40 AM, Hemarajata, Peera wrote:

Dear all,

My Cufflinks jobs keep getting killed due to the walltime limit. Is there a way to fix this or is there anything I can do to reduce the size of my BAM datasets so the analysis can get done?

Thank you!

Peera Hemarajata
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