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java.lang.Objectorg.biojava.bio.program.sax.blastxml.BlastXMLParserFacade
public class BlastXMLParserFacade
A facade class that wraps the NCBI Blast XML parsing framework in a more user-friendly form. It is identical to BlastlikeSAXParser in use.
Constructor Summary | |
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BlastXMLParserFacade()
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Method Summary | |
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org.xml.sax.ContentHandler |
getContentHandler()
correct this later |
org.xml.sax.DTDHandler |
getDTDHandler()
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org.xml.sax.EntityResolver |
getEntityResolver()
This class has an EntityResolver that resolves the public ID specifying the NCBI DTDs to resource files within the BioJava libraries. |
org.xml.sax.ErrorHandler |
getErrorHandler()
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boolean |
getFeature(java.lang.String name)
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java.lang.Object |
getProperty(java.lang.String name)
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void |
parse(org.xml.sax.InputSource is)
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void |
parse(java.lang.String systemId)
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void |
setContentHandler(org.xml.sax.ContentHandler handler)
this sets the ContentHandler that receives SAX events from the internal Blast XML parser which is the actual ContentHandler. |
void |
setDTDHandler(org.xml.sax.DTDHandler handler)
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void |
setEntityResolver(org.xml.sax.EntityResolver resolver)
This class has an EntityResolver that resolves the public ID specifying the NCBI DTDs to resource files within the BioJava libraries. |
void |
setErrorHandler(org.xml.sax.ErrorHandler handler)
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void |
setFeature(java.lang.String key,
boolean value)
by default, we set the parser to non-validating. |
void |
setProperty(java.lang.String key,
java.lang.Object value)
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Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public BlastXMLParserFacade() throws BioException
BioException
Method Detail |
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public org.xml.sax.ContentHandler getContentHandler()
getContentHandler
in interface org.xml.sax.XMLReader
public org.xml.sax.DTDHandler getDTDHandler()
getDTDHandler
in interface org.xml.sax.XMLReader
public org.xml.sax.EntityResolver getEntityResolver()
getEntityResolver
in interface org.xml.sax.XMLReader
public org.xml.sax.ErrorHandler getErrorHandler()
getErrorHandler
in interface org.xml.sax.XMLReader
public boolean getFeature(java.lang.String name) throws org.xml.sax.SAXNotRecognizedException, org.xml.sax.SAXNotSupportedException
getFeature
in interface org.xml.sax.XMLReader
org.xml.sax.SAXNotRecognizedException
org.xml.sax.SAXNotSupportedException
public java.lang.Object getProperty(java.lang.String name) throws org.xml.sax.SAXNotRecognizedException, org.xml.sax.SAXNotSupportedException
getProperty
in interface org.xml.sax.XMLReader
org.xml.sax.SAXNotRecognizedException
org.xml.sax.SAXNotSupportedException
public void parse(org.xml.sax.InputSource is) throws java.io.IOException, org.xml.sax.SAXException
parse
in interface org.xml.sax.XMLReader
java.io.IOException
org.xml.sax.SAXException
public void parse(java.lang.String systemId) throws java.io.IOException, org.xml.sax.SAXException
parse
in interface org.xml.sax.XMLReader
java.io.IOException
org.xml.sax.SAXException
public void setContentHandler(org.xml.sax.ContentHandler handler)
setContentHandler
in interface org.xml.sax.XMLReader
public void setDTDHandler(org.xml.sax.DTDHandler handler)
setDTDHandler
in interface org.xml.sax.XMLReader
public void setEntityResolver(org.xml.sax.EntityResolver resolver)
setEntityResolver
in interface org.xml.sax.XMLReader
public void setErrorHandler(org.xml.sax.ErrorHandler handler)
setErrorHandler
in interface org.xml.sax.XMLReader
public void setFeature(java.lang.String key, boolean value) throws org.xml.sax.SAXNotRecognizedException, org.xml.sax.SAXNotSupportedException
setFeature
in interface org.xml.sax.XMLReader
org.xml.sax.SAXNotRecognizedException
org.xml.sax.SAXNotSupportedException
public void setProperty(java.lang.String key, java.lang.Object value) throws org.xml.sax.SAXNotRecognizedException, org.xml.sax.SAXNotSupportedException
setProperty
in interface org.xml.sax.XMLReader
org.xml.sax.SAXNotRecognizedException
org.xml.sax.SAXNotSupportedException
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