function annotate($text)
{
parent::annotate($text, array(39933));
// 39933 = version-specific localOntologyId from http://rest.bioontology.org/obs/ontologies 1247 = virtualOntologyId
foreach ($this->annotations as &$annotation) {
$annotation['type'] = 'species';
}
}
function annotate($text)
{
parent::annotate($text, array(42919));
// 42919 = version-specific localOntologyId from http://rest.bioontology.org/obs/ontologies
foreach ($this->annotations as &$annotation) {
$annotation['type'] = 'protein';
}
}
function annotate($text)
{
parent::annotate($text, array(42878));
// 42878 = version-specific localOntologyId from http://rest.bioontology.org/obs/ontologies 1007 = virtualOntologyId
foreach ($this->annotations as &$annotation) {
$annotation['type'] = 'chemical';
}
// TODO: lookup structures and calculate stdinchi + stdinchikey for each one
}
