chore: migrate all queries and add_entity calls to use with! syntax.

[RobertJacobsonCDC]

This PR removes support for passing naked tuples of property values to the public query and add_entity APIs. Users now express property bundles with with!(Entity, ...), and use the entity type itself, such as Person, when they want the whole population or default initialization.

The query implementation keeps the tuple machinery internally, but the public API is narrowed through a new Query marker trait. The old Query trait was renamed to QueryInternal, its unnecessary Copy bound was removed, and public query methods now accept only the public Query surface. EntityPropertyTuple<E, Q> and entity ZSTs implement that marker; naked tuples do not.

Entity initialization follows the same public-facing rule. add_entity now accepts PropertyInitializationList<E>, which is implemented for with!(Entity, ...) bundles and for the entity type itself. The existing PropertyList<E> tuple machinery remains available for internal initialization work and type-level property lists used by value-change counting.

The branch also migrates examples, tests, benches, and docs away from naked tuple values. User-facing documentation now consistently shows with!(Person, Age(25)) for property-filtered queries or initialization, and Person for whole-population queries or default initialization.

Commits on this PR:

1. Migrate existing code to the new with!(Entity, ...) style before changing trait bounds, so call-site churn is isolated from API narrowing.
2. Rename the old Query trait to QueryInternal and remove its unnecessary Copy bound.
3. Introduce the new public Query marker trait and narrow public query APIs so with!(Entity, ...) and Entity work, but naked tuples do not.
4. Introduce PropertyInitializationList and narrow add_entity so initialization follows the same public rule: with!(Entity, ...) for property values, Entity for defaults.
5. Update user-facing docs to explain the new with! and entity-type syntax without exposing the internal trait split.

This PR is stacked on top of #848 and supersedes #833.

[github-actions]

Benchmark Results

Hyperfine

Command	Mean [ms]	Min [ms]	Max [ms]	Relative
large_sir::baseline	2.4 ± 0.2	2.3	3.3	1.00
large_sir::entities	4.8 ± 0.3	4.6	6.2	2.01 ± 0.19

Criterion

Regressions (slower)

Group	Bench	Param	Change	CI Lower	CI Upper
indexing	with_query_results_single_indexed_property_entities		28.517%	27.869%	29.216%
counts	reindex_after_adding_more_entities		9.296%	9.037%	9.544%
indexing	query_people_count_multiple_individually_indexed_properties_enti		7.783%	7.529%	8.194%
indexing	with_query_results_indexed_multi-property_entities		7.559%	7.060%	7.915%
sampling	sampling_single_l_reservoir_entities		7.415%	7.287%	7.568%
counts	single_property_indexed_entities		6.630%	6.188%	7.135%
indexing	with_query_results_multiple_individually_indexed_properties_enti		4.826%	4.630%	5.002%
sample_entity	sample_entity_whole_population	1000	4.790%	3.608%	6.159%
sampling	sampling_multiple_known_length_entities		4.117%	3.674%	4.762%
sample_entity	sample_entity_whole_population	10000	3.924%	2.904%	4.991%
counts	concrete_plus_derived_unindexed_entities		2.228%	1.717%	2.799%
indexing	query_people_count_indexed_multi-property_entities		2.041%	1.266%	2.578%
counts	index_after_adding_entities		1.945%	1.572%	2.319%
indexing	query_people_multiple_individually_indexed_properties_entities		1.727%	1.511%	1.921%
algorithm_benches	algorithm_sampling_multiple_l_reservoir		1.311%	1.039%	1.581%

Improvements (faster)

Group	Bench	Param	Change	CI Lower	CI Upper
sampling	count_and_sampling_single_known_length_entities		-12.876%	-13.038%	-12.693%
large_dataset	bench_query_population_multi_unindexed_entities		-10.088%	-11.783%	-8.539%
indexing	query_people_single_indexed_property_entities		-9.596%	-10.814%	-8.308%
counts	multi_property_indexed_entities		-9.435%	-9.736%	-9.111%
examples	example-basic-infection		-9.387%	-9.862%	-9.003%
indexing	query_people_indexed_multi-property_entities		-7.789%	-9.400%	-6.093%
sample_entity	sample_entity_single_property_unindexed	100000	-7.059%	-7.392%	-6.750%
sample_entity	sample_entity_single_property_indexed	10000	-6.623%	-6.894%	-6.167%
sample_entity	sample_entity_single_property_indexed	1000	-6.300%	-6.679%	-5.916%
examples	example-births-deaths		-4.368%	-4.789%	-4.004%
large_dataset	bench_match_entity		-3.328%	-3.884%	-2.881%
sampling	sampling_single_known_length_entities		-3.245%	-3.639%	-2.924%
indexing	query_people_count_single_indexed_property_entities		-3.046%	-3.582%	-2.405%
large_dataset	bench_query_population_indexed_property_entities		-2.673%	-3.285%	-2.192%
sample_entity	sample_entity_multi_property_indexed	10000	-2.458%	-2.822%	-2.064%
sample_entity	sample_entity_single_property_indexed	100000	-2.434%	-2.790%	-2.161%
large_dataset	bench_query_population_derived_property_entities		-2.355%	-3.248%	-1.559%
sample_entity	sample_entity_multi_property_indexed	1000	-2.208%	-2.786%	-1.643%
counts	multi_property_unindexed_entities		-1.653%	-2.324%	-1.148%

Unchanged / inconclusive (CI crosses 0%)

Group	Bench	Param	Change	CI Lower	CI Upper
counts	single_property_unindexed_entities		1.723%	0.370%	3.248%
large_dataset	bench_query_population_property_entities		-1.455%	-2.874%	-0.235%
sampling	sampling_single_unindexed_concrete_plus_derived_entities		-1.249%	-1.590%	-0.882%
algorithm_benches	algorithm_sampling_multiple_known_length		1.179%	-0.315%	2.170%
large_dataset	bench_filter_indexed_entity		-1.074%	-13.070%	12.550%
sample_entity	sample_entity_multi_property_indexed	100000	-1.013%	-1.971%	0.617%
sampling	sampling_multiple_l_reservoir_entities		0.868%	0.797%	0.941%
large_dataset	bench_query_population_multi_indexed_entities		0.790%	0.414%	1.211%
sample_entity	sample_entity_single_property_unindexed	10000	0.690%	0.335%	1.232%
sample_entity	sample_entity_whole_population	100000	-0.542%	-3.613%	2.061%
sample_entity	sample_entity_single_property_unindexed	1000	-0.465%	-0.938%	-0.044%
algorithm_benches	algorithm_sampling_single_known_length		-0.447%	-1.042%	0.075%
sampling	count_and_sampling_single_unindexed_concrete_plus_derived_entiti		0.416%	0.370%	0.465%
large_dataset	bench_filter_unindexed_entity		-0.393%	-4.928%	4.369%
algorithm_benches	algorithm_sampling_single_l_reservoir		-0.144%	-0.437%	0.067%
sampling	sampling_multiple_unindexed_entities		-0.114%	-0.579%	0.324%
sampling	sampling_single_unindexed_entities		-0.096%	-0.240%	0.020%
algorithm_benches	algorithm_sampling_single_rand_reservoir		0.011%	-0.115%	0.167%