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Improved struct documentation to reference Builder patterns in src/simulate_mod_bam.rs
Updated openssl-probe to 0.2.0 and switched to try_init_openssl_env_vars()
Updated bio to 3.0.0
Fixes vergen at "=9.0.6" for fibertools-rs building
Fixed
Fixed mismatch generation bug in src/simulate_mod_bam.rs; this affected how mismatches were made when a simulated BAM file was created.
Added
New test mismatch_mod_check() in src/simulate_mod_bam.rs to validate that simulated mismatches correctly affect modification reference positions while preserving modification quality
Integration tests for read-stats, read-info, and window-grad commands with example fixtures
Integration tests for all find-modified-reads subcommands using BAM simulation