Expect typed FORMAT values in the mutation fixture oracle

[ecrum19]

What

Adds _format_typed_shape() to test/validation_fixtures.py so the mutation fixture's census expects the typed companion triples a FORMAT value now gains.

Why

The emitter gives a single, non-missing Integer/Float FORMAT cell the same vcfc:fieldValueInteger / vcfc:fieldValueDecimal companion an INFO value has always had. The fixture oracle still derived typed counts from INFO alone, so it under-expected — every expanded mutation test reported a MISMATCH on vcfc:fieldValueInteger (expected 4, actual 16), including test_unmutated_expanded_graph_passes, the harness check that must never fail.

The new helper restates the typing rule over the fixture's own FORMAT cells rather than importing the emitter's helper, mirroring how the INFO counters are derived: an expectation computed by the code under test would only prove that code agrees with itself. It reuses the runner's widening rule so a payload longer than the FORMAT column is named the same way.

Verification

• Full suite: 647 tests, OK (python3 -m unittest discover -s test)
• Mutation suite alone: 116 tests, OK
• Baseline at 753034e was clean, so the 11 failures this fixes were introduced by the emitter change, not pre-existing.

Note on 0b00b8f

The emitter and validator halves of this work are already on main in 0b00b8f, whose message ("small conda config change") describes only part of what it carries. That commit also:

• moved FORMAT value typing into vcf_rdfizer.py
• added --shacl-ontology and RDFS inference to the SHACL layer, so the vocabulary's published shapes stop reporting five false subclass violations against a conforming graph
• corrected the retired vcf-rdfizer-vocabulary.shacl.ttl filename in docs/validation.md

History was left as-is deliberately — that commit is already merged via #10.

Still outstanding

src/validation/ is baked into the image rather than mounted, so ecrum19/vcf-rdfizer:latest must be rebuilt and pushed before an end-to-end -m validation run passes. Against the currently published image the new graph reports MISMATCH with extraRows: [{vcfc:fieldValueInteger, tripleCount: 2}] — the old validator correctly flagging triples it does not expect.

🤖 Generated with Claude Code

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Codecov Report

❌ Patch coverage is 93.54839% with 2 lines in your changes missing coverage. Please review.

Files with missing lines	Patch %	Lines
test/validation_fixtures.py	93.54%	2 Missing ⚠️

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