openvax / topiary / 24429793786

88%

master: 90%

Pull #133

github

Add CachedPredictor sharding + bump to v5.6.0 (closes #128)

Final piece of the pluggable prediction-sources work.  concat()
merges multiple caches into one, from_directory() globs a directory
and concats every matching file through from_topiary_output.  All
shards must share (predictor_name, predictor_version) per the core
invariant.

Overlap resolution (on_overlap):
- "raise" (default) — fail if any (peptide, allele, peptide_length)
  appears in more than one shard; sample of conflicts in the error.
- "last" — later shard in the list wins.
- "first" — earlier shard wins.
- callable(row_a, row_b) -> row — user-supplied pairwise resolver
  per duplicate group.  Canonical pattern: keep the row with lower
  affinity (stronger binder).

Docs updated: new "Sharding" section in docs/cached.md with
examples for each policy; docs/api.md table extended with concat +
from_directory.

Version bumped to 5.6.0 (minor — new features since 5.5.0:
#131 vaxrank polish, #132 NetMHC loaders, this PR sharding).
CHANGELOG documents all three work streams under the 5.6.0
section.  12 new sharding tests (1111 total, up from 1099).

45 of 45 new or added lines in 2 files covered. (100.0%)

3311 of 3752 relevant lines covered (88.25%)

2.65 hits per line