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Release v4.0.0: Java 25, SMSD 6.11.1, code modernization
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#139:
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Polish benchmark report: 300 DPI charts, improved reaction images, RE…
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Fix three correctness and memory issues found in code review
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Publish to GitHub Packages on release tags only
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Restore MIXTURE to Phase 2 algorithm set
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Share mapping executor across reactions; name threads for profiling
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Suppress CDK deprecation and unchecked warnings in compiler config
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Bring all docs to v3.8.1: algorithm, changelog, bin README
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Release 3.8.1: SMSD 6.9.1, MolGraph canonical SMILES, benchmark refresh
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Fix benchmark table: use chemically-equivalent metric for fair compar…
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Make logo link to project repo
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Drop Java 17-20 JVM flag incompatible with Java 21
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Refresh benchmark numbers post stereo-fix
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Fix stereo-blind identity shortcut and remove debug output
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Restore README logo banner
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Release 3.8.0
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Align all docs, benchmarks, and jar references to v3.7.0
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Add formal algorithm description for publication (ALGORITHM.md)
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Bump to v3.7.0, enhanced golden dataset benchmark with combined metrics
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Merge dev: v3.6.1 security hardening, memory fixes, SMSD optimization
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Bump RDT version to 3.6.0
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Upgrade SMSD to 6.3.0, replace CDK fingerprints with SMSD, update README
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Add high-quality RDT logo (256x256 SVG)
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Use SMSD path fingerprints in ReactionFingerprinter and ReactionConta…
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Upgrade to Java 21, replace cdk-bundle with 16 individual CDK modules…
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