typo in vcf -Dcription

[evolution]

Hi, 

my stitch imputed vcf has a typo issue for the word Description. Please check out this below. 

(base) [adhikal@login509-02-l MTA]$ grep Dcription merged.filtered.named.trimmed.vcf
##INFO=<ID=INFO_SCORE,Number=.,Type=Float,Dcription="Infocore">
##INFO=<ID=EAF,Number=.,Type=Float,Dcription="timated allele frequency">
##INFO=<ID=HWE,Number=.,Type=Float,Dcription="Hardy-Weinberg p-value">
##INFO=<ID=ERC,Number=.,Type=Float,Dcription="timated number of copi of the reference allele from the pileup">
##INFO=<ID=EAC,Number=.,Type=Float,Dcription="timated number of copi of the alternate allele from the pileup">
##INFO=<ID=PAF,Number=.,Type=Float,Dcription="timated allele frequency ing the pileup of reference and alternate allel">
##INFO=<ID=REF_PANEL,Number=.,Type=Integer,Dcription="Whether a SNP w (1) or w not (0) found in the reference panel during imputation">
##FORMAT=<ID=GT,Number=1,Type=String,Dcription="Bt Gused Genotype with pterior probability thrhold of 0.9">
##FORMAT=<ID=GP,Number=3,Type=Float,Dcription="Pterior genotype probability of 0/0, 0/1, and 1/1">
##FORMAT=<ID=DS,Number=1,Type=Float,Dcription="Dage">
##INFO=<ID=F_MISSING,Number=.,Type=Float,Dcription="Added by +fill-ta exprsion F_MISSING=F_MISSING">
##INFO=<ID=AN,Number=1,Type=Integer,Dcription="Total number of allel in called genotyp">
##INFO=<ID=AC,Number=A,Type=Integer,Dcription="Allele count in genotyp">
##INFO=<ID=MAF,Number=1,Type=Float,Dcription="Frequency of theecond mt common allele">

I fixed it manually, but if you guys fix in the pipeline that would be awesome! 

Thank You!

Laxman

[Robbie Davies]

Hi,

So I'm looking at the current code base and I don't see those typos

https://github.com/rwdavies/STITCH/blob/master/STITCH/R/writers.R#L1065

In fact there are a lot of typos in your header. All "es" seem to be gone for instance e.g. "Bt Gused" vs "Best Guessed"

Can you confirm what version you're using? Where is this from? 

Thanks,

Robbie

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[evolution]

Hi, 

I used this script 

 

Could you please check if this is the issue at 1.8.4 version.

[Robbie Davies]

Hi,

I think it's unlikely this is a version with STITCH as it was released 

Is there something weird with the STITCH.R script? Did you download it? Is it worth re-downloading? And/or checking for any weird behaviour at the end? 

Can you try re-running and confirming the behaviour?

Robbie