Cuffmerge SyntaxError: invalid syntax

Question

[vahid.jj2005]

Hi When I ran Cuffmerge command, I recieved below error. I would be appreciated if you help me, and explain what should I do? Cuffmerge command: cuffmerge -o '/root/Medicago/cuffmerge' --ref-gtf '/root/Medicago/genome/GTF/index.gtf' --min-isoform-fraction 0.1 '/root/Medicago/transcripts/exam1.txt'

The error ; File "/root/cufflinks-2.2.1.Linux_x86_64/cuffmerge", line 95 except getopt.error, msg: ^ SyntaxError: invalid syntax

Thank you so much!

Answer 1

[Kevin Blighe]

Check your Python version with python -V and then take a look here: https://groups.google.com/forum/#!topic/tuxedo-tools-users/egAWEoqONhU

That should help to resolve it.

Kevin