af6a897479
-Only works with single-sample vcfs -As with bams, the user must provide a file mapping the absolute path to each vcf whose samples are to be renamed to the new sample name for that vcf. The argument is the same as for bams: --sample_rename_mapping_file, and the mapping file may contain a mix of bam and vcf files should the user wish. -It's an error to attempt to remap the sample names of a multi-sample or sites-only vcf -Implemented at the codec level at the instant the vcf header is first read in to minimize the chances of downstream code examining vcf headers/records before renaming occurs. -Integration tests are in sting, unit tests are in picard -Rev picard et. al. to 1.111.1902 |
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| .. | ||
| VectorPairHMM | ||
| c | ||
| chainFiles | ||
| doc | ||
| external-example | ||
| gatk-framework | ||
| gatk-package | ||
| gatk-queue-extgen | ||
| gsalib | ||
| java/config | ||
| package-tests | ||
| perl | ||
| queue-framework | ||
| queue-package | ||
| repo | ||
| sting-root | ||
| sting-utils | ||
| pom.xml | ||