feat: add Sankoff parsimony model and directory locking

Implements a calibrated 16-state Sankoff substitution cost matrix and CLI pipeline for evolutionary distance computation, including empirical calibration via saturation-filtered SNP counts. Refactors the sibling scanning stage to use batched transforms for improved synchronization efficiency. Introduces an OS-level advisory directory lock across all index-modifying commands to prevent concurrent write corruption. Updates dependencies and exposes new Sankoff utilities in the public API.

This commit is contained in:

Eric Coissac

2026-08-12 20:05:10 +02:00

parent 14aa82521d

commit 55d7fa2067

17 changed files with 1494 additions and 180 deletions

									
										src/obisys/Cargo.toml
									
		+1
		
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				@@ -8,3 +8,4 @@ libc      = "0.2"

				sysinfo   = "0.33"

				indicatif = "0.17"

				tracing   = "0.1"

				fs4       = "0.9"