Giter VIP home page Giter VIP logo

snippets's People

Contributors

joshuameyers avatar

Stargazers

 avatar  avatar  avatar

Watchers

 avatar  avatar

snippets's Issues

Bug in generate_conformers

I think you have a bug the generate_conformers function

    for i in range(num_conf):
        temp_mol = Chem.Mol(mol_wh)  # copy to avoid inplace changes
        AllChem.ConstrainedEmbed(temp_mol, core1, randomseed=i)
#  Change the line below to assign the return value of RemoveHs like this
        temp_mol = Chem.RemoveHs(temp_mol)
# -----------------------------------------------
        conf_idx = outmol.AddConformer(temp_mol.GetConformer(0), assignId=True)
        if minimum_conf_rms is not None:
            if duplicate_conformers(outmol, conf_idx, rms_limit=minimum_conf_rms):
                dup_count += 1
                outmol.RemoveConformer(conf_idx)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    ๐Ÿ–– Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. ๐Ÿ“Š๐Ÿ“ˆ๐ŸŽ‰

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google โค๏ธ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.