Entering edit mode
12.4 years ago
Natasha
•
0
Hi everyone,
I'm trying to use cuffmerge but I get the following error message:
[Thu Oct 27 13:47:16 2011] Converting GTF files to SAM [FAILED] Error: gtftosam not found on this system. Did you forget to include it in your PATH?
My command line is:
/storage/app/cufflinks-1.0.3/cufflinks-1.0.3.Linuxx8664/cuffmerge -g /storage/data/natasha/gtf/miRNArelatedtracksknownmiRNAshg18.gtf -s /storage/data/natasha/chrsfa/hg18norandomnohap.fa assembles_cancer.txt
I've tested the gtftosam program and it worked fine.
Do I have do put something else in my command line? I've read the manual, but I couldn't find anything...
thanks in advance!