chore: update ci cache, document distance metrics, and bump version

Updated CI workflow cache keys with a `v2` salt and `Cargo.lock` hash to prevent stale incremental compilation caches and deadlocks, while updating restore keys and documenting interrupted job state. Introduced a 3-way ordinal distance metric framework that replaces ambiguous IUPAC encoding with explicit k-mer scoring, bridging pairwise methods to character-based phylogenetics via Sankoff parsimony. Bumped the `obikmer` crate version to 1.1.42.
2026-08-11 17:12:28 +02:00
parent fa82989ea9
commit a63692b8c4
4 changed files with 184 additions and 4 deletions
@@ -25,8 +25,14 @@ jobs:
            ~/.cargo/registry
            ~/.cargo/git
            src/target
-          key: ${{ runner.os }}-cargo-${{ hashFiles('src/Cargo.lock') }}
-          restore-keys: ${{ runner.os }}-cargo-
+          # v2: bump this salt to force a clean cache when a stuck/killed job
+          # may have saved a corrupted incremental-compilation `src/target`
+          # (observed 2026-08-11: a stale test binary deadlocked in NUMA
+          # worker startup; a from-scratch rebuild of the same source fixed
+          # it instantly, pointing at cache corruption rather than a source
+          # bug).
+          key: ${{ runner.os }}-cargo-v2-${{ hashFiles('src/Cargo.lock') }}
+          restore-keys: ${{ runner.os }}-cargo-v2-

      - name: Build
        run: cargo build --release