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Introduce compare_sparse CLI tool to verify index consistency

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Adds a new binary that validates bit-level consistency between dense and sparse K-mer index representations by sampling slots across partitions and reporting discrepancies. Refactors sibling cache matrix initialization into a centralized factory method to simplify control flow and standardize error handling. Introduces diagnostic configurations, benchmark scripts, and an ignored test case to support k-mer resolution analysis.
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Eric Coissac committed 2026-08-17 11:16:42 +02:00
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commit 1f9c6388eb
14 files changed
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@@ -12,10 +12,12 @@ data-stress
*.csv
Betula_exilis--IGA-24-33
benchmark/genomes
benchmark/genomes_orig
benchmark/simulated_data
benchmark/specimen_index_presence
benchmark/specimen_index_count
benchmark/global_index_presence
benchmark/global_index_presence_orig
benchmark/global_index_presence_sav
benchmark/all_specific
benchmark/global_index_count