我见过很多同样的问题，但我还没找到解决方案。我已经向GATKs CombineVariants提供了24个VCF4.1文件（http://evs.gs.washington.edu/EVS/）。我收到这个错误：
##### ERROR MESSAGE: Invalid command line: No tribble type was provided on the command line and the type of the file could not be determined dynamically. Please add an explicit type tag :NAME listing the correct type from among the supported types:
##### ERROR Name FeatureType Documentation
##### ERROR BCF2 VariantContext (this is an external codec and is not documented within GATK)
##### ERROR VCF VariantContext (this is an external codec and is not documented within GATK)
##### ERROR VCF3 VariantContext (this is an external codec and is not documented within GATK)
我在GATK的支持下问过，但没有好的答案。我已经使用VCFtools进行验证，它们都通过了，但有两个，没有严重的警告：
The header tag 'reference' not present. (Not required but highly recommended.)
The header tag 'contig' not present for CHROM=chr10. (Not required but highly recommended.)
有谁知道？