What's Changed

Breaking changes

• Nested fields need to have "nestedAttributes" in the metadata.json, describing the INFO field description prefix and the field separator for parsing those fields.

      "nestedAttributes": {
        "prefix": "Consequence annotations from Ensembl VEP. Format: ",
        "separator": "|"
      },

• Report templates before 8.1.0 are no longer supported

Features

• Add mtdna tests and necesasry files by @MatthieuBeukers in #747 and #748
• Add jvar BLB and PLP variants tests by @MatthieuBeukers in #754
• Update to vip-report 8.1.0 by @bartcharbon in #766
  • Using sqlite wasm as report html data source
  • Using zstd compression for report html
• Update VKGL and ClinVar and update VKGL LB and LP tests by @MatthieuBeukers in #763
• Use mitotip and apogee scores for MT variants by @MatthieuBeukers in #752
• Add hmtvar trna annotation by @MatthieuBeukers in #764

Fixes

• Remove duplicate cli arg from vep annotate call by @dennishendriksen in #744
• Fix #751: awk: Argument list too long + Fix report template and metadata.json by @bartcharbon in #758
• Use X/Y specific settings for deepvariant/trio by @bartcharbon in #760
• Update CuteSV to commit with IUPAC fix by @bartcharbon in #759
• Increase Spectre default memory to 8GB @bartcharbon in #766

Full Changelog: v8.4.5...v9.0.0