ambit2.core.io.bcf
Class EurasBCFReader

java.lang.Object
  org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader
      ambit2.core.io.IteratingFilesWithHeaderReader
          ambit2.core.io.IteratingXLSReader
              ambit2.core.io.bcf.EurasBCFReader

All Implemented Interfaces:

java.util.Iterator, org.openscience.cdk.io.IChemObjectIO, org.openscience.cdk.io.iterator.IIteratingChemObjectReader

public class EurasBCFReader
extends IteratingXLSReader

Field Summary

protected java.util.Hashtable<java.lang.Double,ambit2.base.data.LiteratureEntry>

references

Fields inherited from class ambit2.core.io.IteratingXLSReader

input, iterator, sheet, workbook

Fields inherited from class ambit2.core.io.IteratingFilesWithHeaderReader

defaultSMILESHeader, logger, numberOfHeaderLines, smilesIndex, sp, timeout

Constructor Summary

EurasBCFReader(java.io.InputStream input, int sheetIndex)

Method Summary

protected java.lang.String	getAuthor(org.apache.poi.hssf.usermodel.HSSFRow row)
protected ambit2.base.data.LiteratureEntry	getCitation(org.apache.poi.hssf.usermodel.HSSFRow row)
protected java.lang.String	getIssue(org.apache.poi.hssf.usermodel.HSSFRow row)
protected java.lang.String	getJournal(org.apache.poi.hssf.usermodel.HSSFRow row)
protected java.lang.String	getPages(org.apache.poi.hssf.usermodel.HSSFRow row)
protected java.lang.String	getTitle(org.apache.poi.hssf.usermodel.HSSFRow row)
protected int	getVolume(org.apache.poi.hssf.usermodel.HSSFRow row)
protected int	getYear(org.apache.poi.hssf.usermodel.HSSFRow row)
void	processHeader()
protected void	processRow(org.openscience.cdk.interfaces.IAtomContainer mol)
protected void	readReferences()

Methods inherited from class ambit2.core.io.IteratingXLSReader

close, getFormat, getReference, hasNext, next, processHeader, toString

Methods inherited from class ambit2.core.io.IteratingFilesWithHeaderReader

addHeaderColumn, getHeaderColumn, getNumberOfColumns, getNumberOfHeaderLines, getTimeout, isHeaderEmpty, setHeaderColumn, setNumberOfHeaderLines, setTimeout

Methods inherited from class org.openscience.cdk.io.iterator.DefaultIteratingChemObjectReader

accepts, addChemObjectIOListener, fireFrameRead, fireIOSettingQuestion, getIOSettings, remove, removeChemObjectIOListener

Methods inherited from class java.lang.Object

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

Field Detail

references

protected java.util.Hashtable<java.lang.Double,ambit2.base.data.LiteratureEntry> references

Constructor Detail

EurasBCFReader

public EurasBCFReader(java.io.InputStream input,
                      int sheetIndex)
               throws ambit2.base.exceptions.AmbitIOException

Throws:

ambit2.base.exceptions.AmbitIOException

Method Detail

readReferences

protected void readReferences()

getCitation

protected ambit2.base.data.LiteratureEntry getCitation(org.apache.poi.hssf.usermodel.HSSFRow row)

getAuthor

protected java.lang.String getAuthor(org.apache.poi.hssf.usermodel.HSSFRow row)

getTitle

protected java.lang.String getTitle(org.apache.poi.hssf.usermodel.HSSFRow row)

getJournal

protected java.lang.String getJournal(org.apache.poi.hssf.usermodel.HSSFRow row)

getYear

protected int getYear(org.apache.poi.hssf.usermodel.HSSFRow row)

getVolume

protected int getVolume(org.apache.poi.hssf.usermodel.HSSFRow row)

getIssue

protected java.lang.String getIssue(org.apache.poi.hssf.usermodel.HSSFRow row)

getPages

protected java.lang.String getPages(org.apache.poi.hssf.usermodel.HSSFRow row)

processHeader

public void processHeader()

Overrides:

processHeader in class IteratingXLSReader

processRow

protected void processRow(org.openscience.cdk.interfaces.IAtomContainer mol)

Overrides:

processRow in class IteratingXLSReader