OBIKmers/obikmer
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases 24 Wiki Activity

feat: filter zero-valued entries from kmer strict matches output
Release / create-release (push) Successful in 2m32s
Details
Release / build-linux-x86_64 (push) Successful in 8m13s
Details
Release / build-macos-arm64 (push) Failing after 31s
Details
CI / build (pull_request) Successful in 3m23s
Details

Browse Source 
Optimize query serialization by conditionally excluding genomes with zero total matches. This reduces JSON payload size while preserving the label-to-count mapping structure. Updates architecture documentation and bumps version to 1.1.36.
This commit is contained in:
Eric Coissac
2026-07-07 10:50:01 +02:00
parent 5bdc0f826a
commit 4fc7860825
4 changed files with 6 additions and 4 deletions
Download Patch File Download Diff File Expand all files Collapse all files
docmd/architecture/query.md
+1 -1
View File
@@ -153,7 +153,7 @@ Genome keys follow the iteration order of `meta.genomes`.
|---|---|---|---|
| `kmer_count` | int | always | k-mers confirmed (post-Findere) with at least one genome match |
| `kmer_missing` | int | `--count-missing` | k-mers absent from the index entirely (pre-Findere None) |
| `kmer_strict_matches` | object | always | per-genome accumulated value (label → count or 0/1) |
| `kmer_strict_matches` | object | always | per-genome accumulated value, non-zero entries only (label → count or 0/1) |
| `coverage` | object | `--detail` | per-genome array of per-position contributions (label → [u32]) |
`kmer_count + kmer_missing` ≤ total k_user-mers in the sequence. The gap corresponds to k_user-mers whose z-window was not fully confirmed (at least one s-mer absent or zero for all genomes) but whose first s-mer was present in the index.