Class AGAVEBioSeqHandler

    • Field Detail

      • AGAVE_BIO_SEQ_HANDLER_FACTORY

        public static final StAXHandlerFactory AGAVE_BIO_SEQ_HANDLER_FACTORY
    • Method Detail

      • reportFeature

        public void reportFeature​(Location loc)
        Description copied from interface: AGAVEBioSeqCallbackItf
        Allows nesting class that manages a gene template to gain information about its extent from nested elements. Strand is reported separately as some gene features may not have strand.
        Specified by:
        reportFeature in interface AGAVEBioSeqCallbackItf
      • startElementHandler

        public void startElementHandler​(java.lang.String nsURI,
                                        java.lang.String localName,
                                        java.lang.String qName,
                                        org.xml.sax.Attributes attrs)
                                 throws org.xml.sax.SAXException
        Description copied from class: StAXFeatureHandler
        Element-specific handler. Subclass this to do something useful!
        Overrides:
        startElementHandler in class StAXFeatureHandler
        Throws:
        org.xml.sax.SAXException
      • endElementHandler

        public void endElementHandler​(java.lang.String nsURI,
                                      java.lang.String localName,
                                      java.lang.String qName,
                                      StAXContentHandler handler)
                               throws org.xml.sax.SAXException
        Description copied from class: StAXFeatureHandler
        Element specific exit handler Subclass to do anything useful.
        Overrides:
        endElementHandler in class StAXFeatureHandler
        Throws:
        org.xml.sax.SAXException