Biodiversity

Parses taxonomic scientific name and breaks it into semantic elements.

Installation

To install gem you need RubyGems >= 1.3.6

$ sudo gem install biodiversity #for ruby 1.8.x
$ sudo gem install biodiversity19 #for ruby 1.9.x

Example usage

You can parse file with taxonomic names from command line. File should contain one scientific name per line

nnparser file_with_names

You can use it as a library

require 'biodiversity'

parser = ScientificNameParser.new

# to parse a scientific name into a ruby hash
parser.parse("Plantago major")

#to get json representation
parser.parse("Plantago").to_json
#or
parser.parse("Plantago")
parser.all_json

# to clean name up
parser.parse("             Plantago       major    ")[:scientificName][:normalized] 

# to get only cleaned up latin part of the name
parser.parse("Pseudocercospora dendrobii (H.C. Burnett) U. Braun & Crous 2003")[:scientificName][:canonical]

# to get detailed information about elements of the name
parser.parse("Pseudocercospora dendrobii (H.C. Burnett 1883) U. Braun & Crous 2003")[:scientificName][:details]

# to resolve lsid and get back RDF file
LsidResolver.resolve("urn:lsid:ubio.org:classificationbank:2232671")