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