Package org.forester.io.parsers.phyloxml

Class PhyloXmlHandler

  • All Implemented Interfaces:
    org.xml.sax.ContentHandler, org.xml.sax.DTDHandler, org.xml.sax.EntityResolver, org.xml.sax.ErrorHandler
    public final class PhyloXmlHandler
extends org.xml.sax.helpers.DefaultHandler

    • Method Summary

      All Methods Static Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      static boolean attributeEqualsValue​(XmlElement element, java.lang.String attributeName, java.lang.String attributeValue)  
      void characters​(char[] chars, int start_index, int end_index)  
      void endElement​(java.lang.String namespace_uri, java.lang.String local_name, java.lang.String qualified_name)  
      static java.lang.String getAtttributeValue​(XmlElement element, java.lang.String attributeName)  
      static java.util.Map<java.lang.String,​Sequence> getSequenceMapByIdForPhylogeny​(Phylogeny ph)  
      void startDocument()  
      void startElement​(java.lang.String namespace_uri, java.lang.String local_name, java.lang.String qualified_name, org.xml.sax.Attributes attributes)  

      • Methods inherited from class org.xml.sax.helpers.DefaultHandler

        endDocument, endPrefixMapping, error, fatalError, ignorableWhitespace, notationDecl, processingInstruction, resolveEntity, setDocumentLocator, skippedEntity, startPrefixMapping, unparsedEntityDecl, warning

      • Methods inherited from class java.lang.Object

        clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

    • Method Detail

      • characters

        public void characters​(char[] chars,
                       int start_index,
                       int end_index)
        Specified by:
        characters in interface org.xml.sax.ContentHandler
        Overrides:
        characters in class org.xml.sax.helpers.DefaultHandler

      • endElement

        public void endElement​(java.lang.String namespace_uri,
                       java.lang.String local_name,
                       java.lang.String qualified_name)
                throws org.xml.sax.SAXException
        Specified by:
        endElement in interface org.xml.sax.ContentHandler
        Overrides:
        endElement in class org.xml.sax.helpers.DefaultHandler
        Throws:
        org.xml.sax.SAXException

      • startDocument

        public void startDocument()
                   throws org.xml.sax.SAXException
        Specified by:
        startDocument in interface org.xml.sax.ContentHandler
        Overrides:
        startDocument in class org.xml.sax.helpers.DefaultHandler
        Throws:
        org.xml.sax.SAXException

      • startElement

        public void startElement​(java.lang.String namespace_uri,
                         java.lang.String local_name,
                         java.lang.String qualified_name,
                         org.xml.sax.Attributes attributes)
                  throws org.xml.sax.SAXException
        Specified by:
        startElement in interface org.xml.sax.ContentHandler
        Overrides:
        startElement in class org.xml.sax.helpers.DefaultHandler
        Throws:
        org.xml.sax.SAXException

      • attributeEqualsValue

        public static boolean attributeEqualsValue​(XmlElement element,
                                           java.lang.String attributeName,
                                           java.lang.String attributeValue)

      • getAtttributeValue

        public static java.lang.String getAtttributeValue​(XmlElement element,
                                                  java.lang.String attributeName)

      • getSequenceMapByIdForPhylogeny

        public static java.util.Map<java.lang.String,​Sequence> getSequenceMapByIdForPhylogeny​(Phylogeny ph)