I have a GFF3 file I am trying to use for building a reference for RSEM:

I am using the command:

./rsem-prepare-reference --bowtie --gff3 xxx.gff  xxx.fa  xxx

The Error I get is:

Traceback (most recent call last):
 File "/local/bin/rsem-gff3-to-gtf", line 228, in <module>
print("Loaded {} lines".format(line_no))
ValueError: zero length field name in format

Anyone got an idea what's wrong? I am using Python version 3.5 on my sever. I'm assuming it's coming from the python end of the script 'rsem-gff3-to-gtf' script which rsem-prepare-reference calls?

Thanks.