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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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error: unexpected end-of-file. #47

Open zhujack8 opened 10 months ago

zhujack8 commented 10 months ago

I ran vcf2phylip to generate the phylip file and got an error:

error: unexpected end-of-file.

After checking the .phy file and found the length of name + padding is not equal 9, which is not 10 that is required by dnapars. After I manually padded the name to 10, the problem is gone.

edgardomortiz commented 10 months ago

Sorry, I don't understand the issue, dnapars gave the error? I have never used that program, could you share a sample of your vcf to see if I can do something?

Edgardo

zhujack8 commented 10 months ago

Sorry for the confusing. I meant I used the .phy file from vcf2phylip as input to run PHYLIP dnapars. I got the error. Then I found the problem was that the length of sample name + padding was not equal 10 in the .phy file from vcf2phylip. After I manually padded the name to 10, the problem was gone.