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* Fixes #8379 * check in some working tests * test passes * test passes * test passes * test passes * test passes * ensure that the invariants flush the streams on failure * tests pass * test passes * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * tests pass * Fixes #8391 * tests pass * fix a test with legacy not clear why this was not causing problems before * make a test work * Fixes #8396 * gcc builds work * fingerprint tests pass * mention backwards incompatible change * fix a problem with FindMolChiralCenters * more testing details * enable the test status output * Fixes #8432 fix a bug in double-bond stereo handling for template matching * all depictor tests pass * use the new-stereo chiral ranks in the depiction code * always assign new-stereo chiral ranks * make _ChiralAtomRank a computed property This is analogous to _CIPRank * tweak to the way the atom ordering is computed for 2D coordinate generation * update two expected results * backup * response to review * tests pass * tests pass --------- Co-authored-by: = <=>
RDKit
What is it?
The RDKit is a collection of cheminformatics and machine-learning software written in C++ and Python.
- BSD license - a business friendly license for open source
- Core data structures and algorithms in C++
- Python 3.x wrapper generated using Boost.Python
- Java and C# wrappers generated with SWIG
- JavaScript (generated with emscripten) and CFFI wrappers around important functionality
- 2D and 3D molecular operations
- Descriptor and Fingerprint generation for machine learning
- Molecular database cartridge for PostgreSQL supporting substructure and similarity searches as well as many descriptor calculators
- Cheminformatics nodes for KNIME
- Contrib folder with useful community-contributed software harnessing the power of the RDKit
Installation and getting started
If you are working in Python and using conda (our recommendation), installation is super easy:
$ conda install -c conda-forge rdkit
You can then take a look at our Getting Started in Python guide.
More detailed installation instructions are available in Docs/Book/Install.md.
Documentation
Available on the RDKit page and in the Docs folder on GitHub
The RDKit blog often has useful tips and tricks.
Support and Community
If you have questions, comments, or suggestions, the best places for those are:
If you've found a bug or would like to request a feature, please create an issue
We also have a LinkedIn group
We have a yearly user group meeting (the UGM) where members of the community do presentations and lightning talks on things they've done with the RDKit. Materials from past UGMs, which can quite useful, are also online:
- 2012 UGM, London
- 2013 UGM, Hinxton
- 2014 UGM, Darmstadt
- 2015 UGM, Zurich
- 2016 UGM, Basel
- 2017 UGM, Berlin
- 2018 UGM, Cambridge
- 2019 UGM, Hamburg
- 2020 UGM, virtual
- 2021 UGM, virtual
- 2022 UGM, Berlin
- 2023 UGM, Mainz
- 2024 UGM, Zurich
License
Code released under the BSD license.