Indigo 1.39.0

Released 2026-02-20

Features

  • 3211 Introducing alignment of sense and antisense chains

  • 3273 Circular structures improvement - formation of fused rings

  • 3250 Alignment of sense and antisense strings in AxoLabs format

  • 3337 Bingo NoSQL tautomer substructure search support.

Bugfixes and improvements

  • 3282 Can’t use indigo as a git submodule

  • 3297 Random ‘$$$$V2.0’ empty return from conversion to HELM

  • 3306 Saving to HELM doesn’t work for cycled structures consist of nucleosides

  • 3177 System can’t calculate Calculate properties window values for Amino acids with query bonds

  • 3299 System should set Implicit H value for atoms if the comes without hydrogens from CDXML

  • 3343 Export to Mol v3000 works wrong for stereo bonds between monomers

  • 3369 Bingo NoSQL treat empty flags as NONE instead of ALL

  • 3363 The layout algorithm returns different coordinates on macOS for some tests

  • 3342 Export ot SVG and PNG doesn’t work for stereo bond between monomers, system throws an error: pool: access to unused element

  • 3343 Export to Mol v3000 works wrong for stereo bonds between monomers

  • 3344 Export to SVG/PNG works wrong for stereo bonds between monomers

Full Changelog: https://github.com/epam/Indigo/compare/indigo-1.38.0-rc.1…indigo-1.39.0