Updated VCFv4.5 pdf based on GA4GH Connect feedback

samtools · Apr 22, 2024 · 401e2ec · 401e2ec
2 parents 3fdf5e7 + f08083f
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diff --git a/CRAMv3.pdf b/CRAMv3.pdf
diff --git a/README.md b/README.md
@@ -39,6 +39,7 @@ Variant calling data files
 --------------------------
 
 **[VCFv4.4.tex]** is the canonical specification for the Variant Call Format and its textual (VCF) and binary (BCF) encodings, while **[VCFv4.1.tex]**, **[VCFv4.2.tex]** and **[VCFv4.3.tex]** describe their predecessors.
+**[VCFv4.5.draft.tex]** is a working draft of the upcoming version of VCF format and is under active revision.
 These formats are discussed on the [vcftools-spec mailing list][vcfspec-ml].
 
 **[BCFv1_qref.tex]** summarizes the obsolete BCF1 format historically produced by [samtools].  This format is no longer recommended for use, as it has been superseded by the more widely-implemented BCF2.
@@ -76,6 +77,7 @@ Transfer protocols
 [VCFv4.2.tex]:  http://samtools.github.io/hts-specs/VCFv4.2.pdf
 [VCFv4.3.tex]:  http://samtools.github.io/hts-specs/VCFv4.3.pdf
 [VCFv4.4.tex]:  http://samtools.github.io/hts-specs/VCFv4.4.pdf
+[VCFv4.5.draft.tex]: https://samtools.github.io/hts-specs/VCFv4.5.draft.pdf
 [BCFv1_qref.tex]: http://samtools.github.io/hts-specs/BCFv1_qref.pdf
 [BCFv2_qref.tex]: http://samtools.github.io/hts-specs/BCFv2_qref.pdf
 [BEDv1.tex]:    https://samtools.github.io/hts-specs/BEDv1.pdf

diff --git a/SAMtags.pdf b/SAMtags.pdf
diff --git a/SAMv1.pdf b/SAMv1.pdf
diff --git a/VCFv4.4.pdf b/VCFv4.4.pdf
diff --git a/VCFv4.4.tex b/VCFv4.4.tex
diff --git a/examples/vcf/sv44.vcf b/examples/vcf/sv44.vcf
diff --git a/index.md b/index.md
@@ -26,6 +26,7 @@ Specifications:
 - [VCF v4.2](VCFv4.2.pdf)
 - [VCF v4.3](VCFv4.3.pdf)
 - [VCF v4.4](VCFv4.4.pdf)
+- [VCF v4.5 draft](VCFv4.5.draft.pdf)
 - [BED v1](BEDv1.pdf)
 - [crypt4gh](crypt4gh.pdf)
 - [Htsget](htsget.html)

diff --git a/test/vcf/4.3/failed/failed_body_format_006.vcf b/test/vcf/4.3/failed/failed_body_format_006.vcf