from __future__ import annotations import dataclasses import numpy as np from simulator.config import Config from simulator.empirical_maps import EmpiricalMapStore, PiecewiseRateMap from simulator.sample import _close_worker_shared_maps, _get_worker_empirical, init_worker from simulator.shared_maps import ( attach_shared_empirical_map_store, create_shared_empirical_map_store, release_shared_memory, ) def _tiny_store() -> EmpiricalMapStore: rate_map = PiecewiseRateMap( chrom="chr1", position=np.array([0.0, 10.0, 25.0], dtype=np.float64), rate=np.array([1.0e-8, 2.0e-8], dtype=np.float64), scaling_method="identity", source_format="bed_intervals", ) return EmpiricalMapStore( rec_maps={"chr1": rate_map}, mut_maps={"chr1": rate_map}, metadata={"fixture": {"name": "tiny"}}, ) def test_shared_store_attaches_read_only_views() -> None: source = _tiny_store() assert source.is_available(10) spec, owner_handles = create_shared_empirical_map_store(source) assert len(owner_handles) == 1 assert spec.memory_name == owner_handles[0].name attached = None attached_handles = [] try: attached, attached_handles = attach_shared_empirical_map_store(spec) np.testing.assert_array_equal(attached.rec_maps["chr1"].position, [0.0, 10.0, 25.0]) np.testing.assert_array_equal(attached.mut_maps["chr1"].rate, [1.0e-8, 2.0e-8]) assert not attached.rec_maps["chr1"].position.flags.writeable assert not attached.mut_maps["chr1"].rate.flags.writeable assert attached.metadata == {"fixture": {"name": "tiny"}} assert attached.common_chroms(10) == ["chr1"] assert attached._common_span_cache == source._common_span_cache assert attached._usable_chrom_cache == source._usable_chrom_cache finally: attached = None release_shared_memory(attached_handles) release_shared_memory(owner_handles, unlink=True) def test_worker_uses_shared_store_without_reloading_files() -> None: cfg = Config( recomb_map="this-file-must-not-be-read.bed", mut_map="this-file-must-not-be-read.bed", ) spec, owner_handles = create_shared_empirical_map_store(_tiny_store()) try: init_worker(dataclasses.asdict(cfg), empirical_shared_spec=spec) attached = _get_worker_empirical(cfg) assert attached.is_available(10) assert attached.metadata["fixture"]["name"] == "tiny" finally: _close_worker_shared_maps() release_shared_memory(owner_handles, unlink=True)