Closed chisqr closed 8 years ago
Could you please show me the error message? like Invalid INFO Type.
, Unknown INFO ID: %s, should be defined ahead
?
It is hard to identify the problem from your post. If you don't mind, please send me the VCF file or a part of it.
same error, no any error message like 'Invalid INFO Type' ...
Please send me a part of your VCF file if possible. Otherwise, please use the latest version.
I already sent you an email to your gmail several days ago. can you check that ?
I did not get your email, please resend it to zhengx@uw.edu
Thanks for your test VCF file. There are duplicated INFO ID on line 405 in your file:
Warning messages:
1: LINE: 405, ignore duplicated INFO ID (ANNOVAR_DATE).
2: LINE: 405, ignore duplicated INFO ID (Func.refGene).
3: LINE: 405, ignore duplicated INFO ID (Gene.refGene).
4: LINE: 405, ignore duplicated INFO ID (GeneDetail.refGene).
5: LINE: 405, ignore duplicated INFO ID (ExonicFunc.refGene).
6: LINE: 405, ignore duplicated INFO ID (AAChange.refGene).
SeqArray_1.9.17 could solve this problem.
thanks
Hello,
I used GATK to analyze a gene panel for several subjects. I used snpEff for annotation and then used GATK's variantannotator to make the final vcf file. Now when I am trying to make a GDS file out of it, I get the following error:
Can some one please point to what I am doing wrong here ? Thanks!
regards, Rahul