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In workflows/generate_divref.smk, only subset_phased_genotypes declares wildcard_constraints. The per-chrom rules
extract_gnomad_afs, compute_haplotypes, and extract_gnomad_variant_afs leave {chrom} unconstrained ...
priority:high
tech-debt
ameynert
Goal
Give Tractocamion 4.0 a mature product surface with visual proof of the system.
Why
The repository now has a strong About description, but it still needs visuals so visitors can understand the ...
design
documentation
product
Blackmvmba88
Contexto técnico
La arquitectura OCTO v5 describe F1 operativa como Agent Graph System con URL https://f1.octo.local y una consola
visible donde la jerarquía Agency - Department - Workspace - Agent pueda ...
area:backend
area:frontend
phase:F1
priority:high
type:feature
lssmanager
In workflows/generate_divref.smk, the Hail rules (extract_gnomad_afs:192, extract_sample_metadata:224,
compute_haplotypes:251, extract_gnomad_variant_afs:297, create_divref_index:429) pass Spark driver+executor ...
enhancement
priority:high
tech-debt
Just been testing 0.4.4, it works fine if I keep the model loaded, but when I had it set to unload, it seems to leak
VRAM with each run, possibly during the load/unload? Not too worried as I m happy with ...
gobshyte
divref/tests/tools/test_remap_divref.py covers only the Pydantic models (Variant/ReferenceMapping/Haplotype) and
_parse_pop_freqs. The remap_divref() function itself is untested:
- CSV read + required-field ...
priority:high
test
Contexto técnico
Durante la auditoría F1 del 2026-06-02 se detectó una discrepancia material entre las fuentes de verdad del proyecto:
- docs/OCTO-v5-arquitectura.md / arquitectura adjunta define F1 ...
area:architecture
phase:F1
priority:high
type:task
divref/divref/tools/create_divref_fasta.py — the FASTA writer that produces the pipeline s final deliverable — has no
test file (test_create_divref_fasta.py does not exist).
Untested behaviors: per-contig ...
priority:high
test
The code computes haplotypes for chr1–chr22 and chrX (generate_divref.smk:63: _HAPLOTYPE_CONTIGS = frozenset(chr1..22) |
{ chrX }, and the haploid-male non-PAR correction in compute_haplotypes.py exists ...
documentation
priority:high
Lembrando que a programação será Node.Js.
Infra
s1
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s3
s4
rafaelcleversystems
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Learn how you can use GitHub Issues to plan and track your work.
Save views for sprints, backlogs, teams, or releases. Rank, sort, and filter issues to suit the occasion. The possibilities are endless.Learn more about GitHub IssuesProTip! Restrict your search to the title by using the in:title qualifier.