fix(report): read every repeat, Y and phase result truthfully, and bring the docs and pins in line with 1.0.0 by geiresx · Pull Request #325 · GeiserX/OwnGenome

fix(report): read a header-only Y tree path table as an empty path

GeiserX

committed

3a13913

fix(report): read no copy from a phased GT with an uncalled allele

GeiserX

committed

5c2776d

fix(live): pin the nf-weblog plugin in versions.env with a Renovate rule

GeiserX

committed

9f19f15

fix(report): read the CFTR and UGT1A1 repeats without overclaiming

GeiserX

committed

c7a136a

docs: say what the report search, the Nextflow report and the tests really cover

GeiserX

committed

70c0742

fix(schema): name the cram,crai and gvcf,gvcf_index samplesheet columns in --input

GeiserX

committed

7a4c99e

test(docs): fail when a schema parameter has no row in docs/parameters.md

GeiserX

committed

7d310a4

fix(report): say a homozygous R117H with no 5T copy sits on both copies

GeiserX

committed

d85e9d5

docs(report): say a chrX, chrY or chrM expansion position can be a search term

GeiserX

committed

6d8c717

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fix(report): read every repeat, Y and phase result truthfully, and bring the docs and pins in line with 1.0.0 - #325

fix(report): read every repeat, Y and phase result truthfully, and bring the docs and pins in line with 1.0.0#325
GeiserX merged 12 commits into
GeiserX:mainfrom
geiresx:pgp/followups-report

Commits on Nov 7, 2026

fix(report): read a header-only Y tree path table as an empty path

fix(report): read no copy from a phased GT with an uncalled allele

fix(live): pin the nf-weblog plugin in versions.env with a Renovate rule

fix(report): read the CFTR and UGT1A1 repeats without overclaiming

docs: say what the report search, the Nextflow report and the tests really cover

fix(schema): name the cram,crai and gvcf,gvcf_index samplesheet columns in --input

test(docs): fail when a schema parameter has no row in docs/parameters.md

fix(report): say a homozygous R117H with no 5T copy sits on both copies

docs(report): say a chrX, chrY or chrM expansion position can be a search term

Commits on Nov 8, 2026

Merge origin/main into pgp/followups-report

docs(export): say why the round trip leaves chrM out now that chip-to-vcf moves 23andMe MT sites

train: #325 on main and the PRs queued before it