Metadata-Version: 1.1
Name: pymetamap
Version: 0.1
Summary: Python wrapper around MetaMap
Home-page: https://github.com/AnthonyMRios/pymetamap
Author: Anthony Rios
Author-email: anthonymrios@gmail.com
License: Apache 2.0
Description: pymetamap
        =========
        
        Python wrapper around `MetaMap <http://metamap.nlm.nih.gov/>`_.
        This will take a list of sentences and extract concepts using MetaMap
        then return them in the form of a list of Concept objects.
        
        **Note:** This code does **not** work with Windows because of my use of NamedTemporaryFile in SubprocessBackend.py.
        
        How to Install
        --------------
        
        First, install MetaMap by using the following instructions: https://metamap.nlm.nih.gov/Installation.shtml
        
        Next, pymetamap can be installed using the following command:
        
        >>> python setup.py install
        
        Example Usage
        -------------
        
        To start you must create a MetaMap instance from the pymetamap package.
        ::
            >>> from pymetamap import MetaMap
            >>> mm = MetaMap.get_instance('/opt/public_mm/bin/metamap12')
        
        You must supply the metamap binary to ``get_instance()`` in order to
        extract concepts. Depending on where you installed MetaMap and depending on the version you are using, you will need to change the ``/opt/public_mm/bin/metamap12`` to the correct location. For example, if you installed the 2016 version of MetaMap, then the binary will be called ``metamap16``.
        
        To extract concepts from a sentence use the ``extract_concepts()``
        method. This method taks a list of sentences as input and will return
        a list of Concept objects.
        ::
            >>> sents = ['Heart Attack', 'John had a huge heart attack']
            >>> concepts,error = mm.extract_concepts(sents,[1,2])
            >>> for concept in concepts:
            ...     print concept
            Concept(index='1', mm='MM', score='14.64', preferred_name='Myocardial Infarction', cui='C0027051', semtypes='[dsyn]', trigger='["Heart attack"-tx-1-"Heart Attack"]', location='TX', pos_info='1:12', tree_codes='C14.280.647.500;C14.907.585.500')
            Concept(index='2', mm='MM', score='13.22', preferred_name='Myocardial Infarction', cui='C0027051', semtypes='[dsyn]', trigger='["Heart attack"-tx-1-"heart attack"]', location='TX', pos_info='17:12', tree_codes='C14.280.647.500;C14.907.585.500')
        
        This example shows two seperate concepts extracted via MetaMap from two
        different sentences (sentence 1 and sentence 2).
        
        More Information
        ----------------
        
        Licensed under `Apache 2.0 <http://www.apache.org/licenses/LICENSE-2.0>`_.
        
        Written by Anthony Rios
        
        Special thanks to `joaopalotti <https://github.com/joaopalotti>`_ and others for their contributions.
        
        webpage: `https://github.com/AnthonyMRios/pymetamap <https://github.com/AnthonyMRios/pymetamap>`_
        
Platform: UNKNOWN
Classifier: Intended Audience :: Science/Research
Classifier: License :: OSI Approved :: Apache Software License
Classifier: Natural Language :: English
