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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: gtf_to_sam 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.Linux_x86_64/cuffmerge -g /storage/data/natasha/gtf/miRNA_related_tracks_known_miRNAs_hg18.gtf -s /storage/data/natasha/chrs_fa/hg18_no_random_no_hap.fa assembles_cancer.txt
I've tested the gtf_to_sam program and it works 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!
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: gtf_to_sam 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.Linux_x86_64/cuffmerge -g /storage/data/natasha/gtf/miRNA_related_tracks_known_miRNAs_hg18.gtf -s /storage/data/natasha/chrs_fa/hg18_no_random_no_hap.fa assembles_cancer.txt
I've tested the gtf_to_sam program and it works 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!
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