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samtools / htsjdk Public

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VCFHeader and VCFHeaderLine rewrite/refactoring#1581

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cmnbroad wants to merge 12 commits intomastersamtools/htsjdk:masterfrom cn_vcf_headersamtools/htsjdk:cn_vcf_headerCopy head branch name to clipboard

+6,558-1,721

Conversation Commits12 (12)Checks Files changed

Commits

Commits on Mar 13, 2023

Commit with raw GATK SequenceDictionaryUtils and SequenceDictionaryUtilsTest.
cmnbroad
committed
VCFHeader and VCFHeaderLine refactoring to enable support for VCF4.3/BCF2.2 and bug fixes.
cmnbroad
committed
Eliminate redundant modeling of VCFHeaderVersion in VCFHeader.
cmnbroad
committed
Eliminate redundant modeling of file format lines in VCFMetaDataLines.
cmnbroad
committed
More code review comments.
cmnbroad
committed
Changes needed to port GATK over to htsjdk SAMSequenceDictionaryUtils.
cmnbroad
committed
One more code review comment fix.
cmnbroad
committed
Make VCFMetaDataLines public/@internalapi to allow consumers access for customs serialization.
cmnbroad
committed
Versioned header line validation framework.
cmnbroad
committed
Remove obsolete variable.
cmnbroad
committed

Commits on Jun 27, 2023

Properly handle info fields with embedded spaces by VCF version.
cmnbroad
committed
Remove unnecessary null test.
cmnbroad
committed

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