Class pmr.chemime.FASTA
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Class pmr.chemime.FASTA

java.lang.Object
   |
   +----java.awt.Component
           |
           +----java.awt.Container
                   |
                   +----java.awt.Panel
                           |
                           +----java.applet.Applet
                                   |
                                   +----pmr.simplegraph.SimpleApplet
                                           |
                                           +----pmr.sgml.SGMLApplet
                                                   |
                                                   +----pmr.sgml.SGMLTree
                                                           |
                                                           +----pmr.cml.CMLTree
                                                                   |
                                                                   +----pmr.chemime.ChemTree
                                                                           |
                                                                           +----pmr.chemime.FASTA

public class FASTA
extends ChemTree

Constructor Index

 o FASTA(String, StringList)
create a CMLTree from a FASTA file

Method Index

 o process()
the standard SGMLNode 'process' routine
 o showHelp()
display help

Constructors

 o FASTA
  public FASTA(String filename,
               StringList lines) throws BadFileException
create a CMLTree from a FASTA file
Parameters:
filename - name of file to read from (or title if lines != null)
lines - if lines != null, use this as file content instead of filename
Throws: BadFileException
missing or corrupt FASTA file

Methods

 o showHelp
  public void showHelp()
display help
Overrides:
showHelp in class ChemTree
 o process
  public void process() throws BadFileException
the standard SGMLNode 'process' routine
Throws: BadFileException
corrupt FASTA file

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