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joelib.io.types
Class HIN  

java.lang.Object
  joelib.io.types.HIN

All Implemented Interfaces:

joelib.io.MoleculeFileType

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public class HIN

extends java.lang.Object

implements joelib.io.MoleculeFileType

Atom representation.

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Field Summary
private static java.lang.String	description
private static java.lang.String[]	extensions
private  boolean	forceUnixStyle
private  java.io.LineNumberReader	lnr
private static org.apache.log4j.Category	logger           Obtain a suitable logger.
private  int	moleculeEntry
private  cformat.PrintfStream	ps

 

Constructor Summary

HIN()

 

Method Summary
void	closeReader()           Description of the Method
void	closeWriter()           Description of the Method
void	initReader(java.io.InputStream is)           Description of the Method
void	initWriter(java.io.OutputStream os)           Description of the Method
java.lang.String	inputDescription()           Description of the Method
java.lang.String[]	inputFileExtensions()           Description of the Method
java.lang.String	outputDescription()           Description of the Method
java.lang.String[]	outputFileExtensions()           Description of the Method
java.lang.String	read()           Reads an molecule entry as (unparsed) String representation.
boolean	read(joelib.molecule.JOEMol mol)           Description of the Method
boolean	read(joelib.molecule.JOEMol mol, java.lang.String title)           Loads an molecule in MDL SD-MOL format and sets the title.
boolean	readable()           Returns true if this molecule data type is readable.
void	resetMoleculeEntryNumber()
boolean	skipReaderEntry()           Description of the Method
boolean	write(joelib.molecule.JOEMol mol)           Description of the Method
boolean	write(joelib.molecule.JOEMol mol, java.lang.String title)           Description of the Method
boolean	writeable()           Returns true if this molecule data type is writeable.

 

Methods inherited from class java.lang.Object

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

 

Field Detail

logger

private static org.apache.log4j.Category logger

Obtain a suitable logger.

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description

private static final java.lang.String description

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extensions

private static final java.lang.String[] extensions

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lnr

private java.io.LineNumberReader lnr

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ps

private cformat.PrintfStream ps

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forceUnixStyle

private boolean forceUnixStyle

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moleculeEntry

private int moleculeEntry

Constructor Detail

HIN

public HIN()

Method Detail

closeReader

public void closeReader()
                 throws java.io.IOException

Description of the Method

Specified by:

closeReader in interface joelib.io.MoleculeFileType

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closeWriter

public void closeWriter()
                 throws java.io.IOException

Description of the Method

Specified by:

closeWriter in interface joelib.io.MoleculeFileType

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initReader

public void initReader(java.io.InputStream is)
                throws java.io.IOException

Description copied from interface: joelib.io.MoleculeFileType

Description of the Method

Specified by:

initReader in interface joelib.io.MoleculeFileType

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initWriter

public void initWriter(java.io.OutputStream os)
                throws java.io.IOException

Description of the Method

Specified by:

initWriter in interface joelib.io.MoleculeFileType

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inputDescription

public java.lang.String inputDescription()

Description copied from interface: joelib.io.MoleculeFileType

Description of the Method

Specified by:

inputDescription in interface joelib.io.MoleculeFileType

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inputFileExtensions

public java.lang.String[] inputFileExtensions()

Description copied from interface: joelib.io.MoleculeFileType

Description of the Method

Specified by:

inputFileExtensions in interface joelib.io.MoleculeFileType

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outputDescription

public java.lang.String outputDescription()

Description copied from interface: joelib.io.MoleculeFileType

Description of the Method

Specified by:

outputDescription in interface joelib.io.MoleculeFileType

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outputFileExtensions

public java.lang.String[] outputFileExtensions()

Description copied from interface: joelib.io.MoleculeFileType

Description of the Method

Specified by:

outputFileExtensions in interface joelib.io.MoleculeFileType

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read

public java.lang.String read()
                      throws java.io.IOException

Reads an molecule entry as (unparsed) String representation.

Specified by:

read in interface joelib.io.MoleculeFileType

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read

public boolean read(joelib.molecule.JOEMol mol)
             throws java.io.IOException,
                    joelib.io.MoleculeIOException

Description of the Method

Specified by:

read in interface joelib.io.MoleculeFileType

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read

public boolean read(joelib.molecule.JOEMol mol,
                    java.lang.String title)
             throws java.io.IOException,
                    joelib.io.MoleculeIOException

Loads an molecule in MDL SD-MOL format and sets the title. If title is null the title line in the molecule file is used.

Specified by:

read in interface joelib.io.MoleculeFileType

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readable

public boolean readable()

Description copied from interface: joelib.io.MoleculeFileType

Returns true if this molecule data type is readable.

Specified by:

readable in interface joelib.io.MoleculeFileType

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resetMoleculeEntryNumber

public void resetMoleculeEntryNumber()

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skipReaderEntry

public boolean skipReaderEntry()
                        throws java.io.IOException

Description of the Method

Specified by:

skipReaderEntry in interface joelib.io.MoleculeFileType

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write

public boolean write(joelib.molecule.JOEMol mol)
              throws java.io.IOException

Description of the Method

Specified by:

write in interface joelib.io.MoleculeFileType

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write

public boolean write(joelib.molecule.JOEMol mol,
                     java.lang.String title)
              throws java.io.IOException

Description of the Method

Specified by:

write in interface joelib.io.MoleculeFileType

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writeable

public boolean writeable()

Description copied from interface: joelib.io.MoleculeFileType

Returns true if this molecule data type is writeable.

Specified by:

writeable in interface joelib.io.MoleculeFileType

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Overview  Package   Class  Use  Deprecated  Index
Home >> All >> joelib >> io >> [ types overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

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