How to give multiple input files to the gatk ?

How to give multiple input files to the gatk ?

0

Hi all,

I want to use gatk-package-4.2.0.0 for updating my VCF dictionary. I use the script below for just one VCF file, and it has worked so far.

 java -jar gatk-package-4.2.0.0-local.jar  UpdateVCFSequenceDictionary 
-V /PATH _TO_INPUT_FILE.vcf --sequence-dictionary /PATH_TO_DICTIONARY.dict -O /PATH_TO_OUTPUT_FILE.vcf

Now I have multiple input files with different names. How should I change my script to update the dictionary of all files?

Thanks for any help


dictionary


vcf


gatk

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