I'm running dexseq_prepare_annotation.py on ENSEMBL GTF (I have tried gtf files from a couple of releases) files and have the following error.
File "dexseq_prepare_annotation.p", line 129
raise ValueError, "Same name found on two chromosomes: %s, %s" % ( str(l[i]), str(l[i+1]) )
SyntaxError: invalid syntax
<font face="monospace">I'm not particularly familiar with python and will be grateful for any pointers on how to deal with this problem.</font>