Error running sample dataset

[Anto007]

Hi Chris,

I'm getting the below error when I try to run your sample dataset. I'm using virtualenv to switch between python versions. Any help here would be highly appreciated.

(ENV) anto@kw12957:~$ iRep -f /home/antonycp/Downloads/l_gasseri.fna -s /home/anto/Downloads/l_gasseri.fna-vs-l_gasseri_sample2-shrunk.sam -o /home/anto/Downloads/test.iRep Traceback (most recent call last): File "/home/anto/ENV/bin/iRep", line 73, in thresholds, args['no_gc_correction'], args['t']) File "/home/anto/ENV/lib/python3.6/site-packages/iRep/iRep.py", line 976, in iRep genomes, id2g = parse_genomes_fa(fastas, mappings) File "/home/anto/ENV/lib/python3.6/site-packages/iRep/iRep.py", line 916, in parse_genomes_fa for seq in parse_fasta(genome): File "/home/anto/ENV/lib/python3.6/site-packages/iRep/fasta.py", line 19, in iterate_fasta sequence, formatted = parse_fasta(line, sequence, length) File "/home/anto/ENV/lib/python3.6/site-packages/iRep/fasta.py", line 32, in parse_fasta sequence[1].append(line.replace(' ', '')) IndexError: list index out of range

[AhHua]

Hi Anto,

I know this is closed, but I am having the same error here. May I know what should I do to fix this?

Thank you very much.

Yangyang

[lalalagartija]

same here and I tried bPTR on 2 different computers