org.jmol.adapter.smarter
Class SmarterJmolAdapter
public
class
SmarterJmolAdapter
extends JmolAdapter
Method Summary |
boolean | coordinatesAreFractional(Object clientFile) |
void | finish(Object clientFile) |
JmolAdapter.AtomIterator | getAtomIterator(Object clientFile) |
Hashtable | getAtomSetAuxiliaryInfo(Object clientFile, int atomSetIndex) |
Hashtable | getAtomSetCollectionAuxiliaryInfo(Object clientFile) |
String | getAtomSetCollectionName(Object clientFile) |
Properties | getAtomSetCollectionProperties(Object clientFile) |
int | getAtomSetCount(Object clientFile) |
String | getAtomSetName(Object clientFile, int atomSetIndex) |
int | getAtomSetNumber(Object clientFile, int atomSetIndex) |
Properties | getAtomSetProperties(Object clientFile, int atomSetIndex) |
JmolAdapter.BondIterator | getBondIterator(Object clientFile) |
int | getEstimatedAtomCount(Object clientFile) |
String | getFileTypeName(Object clientFile) |
float[] | getNotionalUnitcell(Object clientFile) |
float[] | getPdbScaleMatrix(Object clientFile) |
float[] | getPdbScaleTranslate(Object clientFile) |
JmolAdapter.StructureIterator | getStructureIterator(Object clientFile) |
Object | openBufferedReader(String name, String type, BufferedReader bufferedReader, Hashtable htParams) |
Object | openBufferedReaders(JmolFileReaderInterface fileReader, String[] names, String[] types, Hashtable[] htParams) |
Object | openDOMReader(Object DOMNode) |
Object | openZipFiles(InputStream is, String fileName, String[] zipDirectory, Hashtable htParams, boolean asBufferedReader) |
String[] | specialLoad(String name, String type) |
static String | staticGetFileTypeName(Object clientFile) |
static Object | staticOpenBufferedReader(String name, String type, BufferedReader bufferedReader, Hashtable htParams) |
static Object | staticOpenBufferedReaders(JmolFileReaderInterface fileReader, String[] names, String[] types, Hashtable[] htParams) |
static Object | staticOpenDOMReader(Object DOMNode) |
static Object | staticOpenZipFiles(InputStream is, String fileName, String[] zipDirectory, Hashtable htParams, int subFilePtr, boolean asBufferedReader) |
public static final String PATH_KEY
public static final String PATH_SEPARATOR
public SmarterJmolAdapter()
public boolean coordinatesAreFractional(Object clientFile)
public void finish(Object clientFile)
public Hashtable getAtomSetAuxiliaryInfo(Object clientFile, int atomSetIndex)
public Hashtable getAtomSetCollectionAuxiliaryInfo(Object clientFile)
public String getAtomSetCollectionName(Object clientFile)
public Properties getAtomSetCollectionProperties(Object clientFile)
public int getAtomSetCount(Object clientFile)
public String getAtomSetName(Object clientFile, int atomSetIndex)
public int getAtomSetNumber(Object clientFile, int atomSetIndex)
public Properties getAtomSetProperties(Object clientFile, int atomSetIndex)
public int getEstimatedAtomCount(Object clientFile)
public String getFileTypeName(Object clientFile)
public float[] getNotionalUnitcell(Object clientFile)
public float[] getPdbScaleMatrix(Object clientFile)
public float[] getPdbScaleTranslate(Object clientFile)
public Object openBufferedReader(String name, String type, BufferedReader bufferedReader, Hashtable htParams)
public Object openBufferedReaders(
JmolFileReaderInterface fileReader, String[] names, String[] types, Hashtable[] htParams)
public Object openDOMReader(Object DOMNode)
public Object openZipFiles(InputStream is, String fileName, String[] zipDirectory, Hashtable htParams, boolean asBufferedReader)
public String[] specialLoad(String name, String type)
private static String staticGetFileTypeName(Object clientFile)
private static Object staticOpenBufferedReader(String name, String type, BufferedReader bufferedReader, Hashtable htParams)
private static Object staticOpenBufferedReaders(
JmolFileReaderInterface fileReader, String[] names, String[] types, Hashtable[] htParams)
private static Object staticOpenDOMReader(Object DOMNode)
private static Object staticOpenZipFiles(InputStream is, String fileName, String[] zipDirectory, Hashtable htParams, int subFilePtr, boolean asBufferedReader)