When I attempt to run cufflinks based on .sam output from bowtie I get an

An error occurred running this job: *cufflinks v1.0.1
cufflinks -q --no-update-check -I 300000 -F 0.050000 -j 0.050000 -p 8 -b
Error running cufflinks. [Errno 2] No such file or directory:

*What can I do to get around this problem and run cufflinks?

My workflow is on http://main.g2.bx.psu.edu and can be found here (I ran it
using a .fastq file):


Thanks in advance for your help!



David Robinson
Graduate Student
Lewis-Sigler Institute for Integrative Genomics
Carl Icahn Laboratory
Princeton University

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