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edgardomortiz / vcf2phylip

Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
GNU General Public License v3.0
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Getting an error on vcf2phylip #7

Closed NLRivera1 closed 5 years ago

NLRivera1 commented 5 years ago

Hello, I'm having issues converting my vcf file. I work with Ubuntu.

The command I entered: python ~/vcf2phylip/vcf2phylip.py -i Final.vcf Traceback (most recent call last): File "/home/computer/vcf2phylip/vcf2phylip.py", line 397, in main() File "/home/computer/vcf2phylip/vcf2phylip.py", line 220, in main site_tmp = ''.join([(amb[(nuc[broken[i][0]], nuc[broken[i][2]])]) for i in range(9, index_last_sample)]) KeyError: '2'

I've attached the file here as well. Final.vcf.gz

Any and all help is appreciated!

edgardomortiz commented 5 years ago

Hello, please clone again, retry, and let me know if it works. It should be fixed, I tested it with the provided matrix.

Edgardo

edgardomortiz commented 5 years ago

I will assume the issue was resolved and close it.

Edgardo