Document to Structure Code Examples

Document to Structure is a toolkit for extracting chemical structures out of text, HTML and PDF documents. Currently, it recognizes names, SMILES, and InChI. Its API class is chemaxon.naming.DocumentExtractor. Below is a list of real life use-cases and code examples that showcase the various ways to use it:

1. Finding structures in text:
   Uses DocumentExtractor's processPlainText() method to process a string.
2. Finding structures in a live webpage:
   Downloads a live webpage and processes it using DocumentExtractor's processHTML() method.
3. Finding structures in a PDF document:
   Creates a DocumentExtractor instance that reads the text from the PDF document.
4. Highlighting recognized structures in a webpage:
   Finds the recognized names in the HTML code and wraps them with a special element for highlighting.
5. Saving results in SDF or MRV file:
   Saves the results and related information into a multi-molecule file for use in chemical editors.
6. Storing results in a JChem structure table:
   Sets up a database connection and stores the hits in a chemical structure database for searching.
7. Increasing processing speed by multithreading:
   Uses multithreading and breaks HTML pages into fragments.