The provided VCF file is malformed at...
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My question could seems like here but, the answer didn't help me.

I am using VariantFiltration over a VCF file which is generated directly after UnifiedGenotype under GenomeAnalysisTK-2.3-9-ge5ebf34.

The error I am facing is

##### ERROR MESSAGE: The provided VCF file is malformed at approximately line number 126: there aren't enough columns for line 70 (we expected 9 tokens, and saw 1 )

Line number 126 is as following,

#CHROM  POS ID  REF ALT QUAL    FILTER  INFO    FORMAT  m1016ROUa.40287 m1023ROGa.40244 m1042ujba.40261 m1069FXFa.49470

And actually indeed it is the header of VCF file ! Should I re-run my samples ?!!


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