SDF Parser(Any language)

Question

[rmoore8869]

I'm looking to parse a large .sdf file and put it into a csv. The only software I could find that parses .sdf files is OpenBabel's Pybel, but it won't properly install for my El Capitan, for either python2.7 or 3.+(its an open issue, and might hopefully be fixed with the next release). Are there any other languages/OSS that can easily parse this file? As well, if there aren't is there a recommended Operating System I could spin up with Vagrant/VirtualBox that will easily run OpenBabel/Pybel?

Thanks.

Answer 1

[leonqli]

Open Babel, c++ Chemistry Development Kit (CDK), Java RDKit, C++ Indigo, c++

Or you may use KNIME which has many plugins for cheminformatics.

Hope this helps.