fasta2homozygous.py error

[mgalland]

Dear Leszek,
Your Redundans assembly pipeline looks very promising. Unfortunately I got stuck when running the test run:

./redundans.py -v -i test/*.fq.gz -f test/contigs.fa -o test/run1

I got the following error message:
File "/home/mgalland/workspace/wild_tomato_genomes/scr/redundans/bin/fasta2homozygous.py", line 126 contig2skip = {c: 0 for c in faidx}
SyntaxError: invalid syntax

The forlooks like the problem here.

Can you help there?
Thanks in advance,
Marc

[lpryszcz]

You need to use Python 2.7 (most likely you are running python 2.6).

Bests,

[lpryszcz]

I've added exception for Python versions other than 2.7.