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java.lang.Objectnativeapps.Pdb2XML
public class Pdb2XML
Blast2XML is an application for the conversion native output from BLAST-like bioinformatics software into an XML format. For currently supported bioinformatics programs, please see the documentation for the BlastLikeSaxParser.
The XML produced should validate against the biojava BlastLikeDataSetCollection DTD. Usage is:
java Blast2XML <blastlike pathname> [-mode <strict|lazy>]-mode is optional paramater. Choosing strict mode will mean the application throws exceptions if the precise version of a given piece of bioinformatics software is not recognised. Lazy mode will attempt to parse the file regardless of version number.
For programs currently supported, please see the documentation for the BlastLikeSAXParser.
Copyright © 2000 Cambridge Antibody Technology. All Rights Reserved.
Primary author -
Constructor Summary | |
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Pdb2XML()
Deprecated. |
Method Summary | |
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static void |
main(String[] args)
Deprecated. Converts an file containing the output from bioinformatics software with a "blast-like" format into an XML format. |
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 Pdb2XML()
Method Detail |
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public static void main(String[] args) throws Exception
args
- a String[]
representation of a pathname
Exception
- if an error occurs
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