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C

calculateArrayLength(long) - Method in class info.bioinfweb.commons.collections.PackedIntegerArrayList
Calculates the number of long array elements necessary to store the specified number of elements.
canRedo() - Method in class info.bioinfweb.commons.swing.AbstractDocumentEdit
 
canUndo() - Method in class info.bioinfweb.commons.swing.AbstractDocumentEdit
 
cascade(int) - Method in class info.bioinfweb.commons.swing.ExtendedDesktopPane
 
cascade() - Method in class info.bioinfweb.commons.swing.ExtendedDesktopPane
 
ceilingEntry(K) - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
ceilingKey(K) - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
changedUpdate(DocumentEvent) - Method in class info.bioinfweb.commons.swing.SwingChangeMonitor
 
ChangeMonitor - Class in info.bioinfweb.commons.changemonitor
Basic implementation of ChangeMonitorable.
ChangeMonitor() - Constructor for class info.bioinfweb.commons.changemonitor.ChangeMonitor
 
ChangeMonitorable - Interface in info.bioinfweb.commons.changemonitor
A common interface that can be implemented by classes that track whether they have undergone changes.
clear() - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
clear() - Method in class info.bioinfweb.commons.collections.SequenceIntervalList
 
clear() - Method in class info.bioinfweb.commons.collections.SequenceIntervalList.IntervalInformation
 
clear() - Method in class info.bioinfweb.commons.io.IOProgressListenerVector
 
clear() - Method in class info.bioinfweb.commons.swing.ActionMap
 
clear() - Method in class info.bioinfweb.commons.text.UniqueNameMap
 
clearOffscreeImage() - Method in class info.bioinfweb.commons.applet.DoubleBufferedApplet
 
clone() - Method in class info.bioinfweb.commons.appversion.ApplicationVersion
Returns a new instance if this class having the same version numbers and application type as this instance.
clone() - Method in class info.bioinfweb.commons.io.FormatVersion
 
close() - Method in class info.bioinfweb.commons.log.TextFileApplicationLogger
 
columnAdded(TableColumnModelEvent) - Method in class info.bioinfweb.commons.swing.TableColumnModelAdapter
 
columnMarginChanged(ChangeEvent) - Method in class info.bioinfweb.commons.swing.TableColumnModelAdapter
 
columnMoved(TableColumnModelEvent) - Method in class info.bioinfweb.commons.swing.TableColumnModelAdapter
 
columnRemoved(TableColumnModelEvent) - Method in class info.bioinfweb.commons.swing.TableColumnModelAdapter
 
columnSelectionChanged(ListSelectionEvent) - Method in class info.bioinfweb.commons.swing.TableColumnModelAdapter
 
CommandLineReader - Class in info.bioinfweb.commons
Tool class that allows to analyze command line arguments that have been passed to an application.
CommandLineReader(String[]) - Constructor for class info.bioinfweb.commons.CommandLineReader
Creates a new instance of this class.
comparator() - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
compare(T, T) - Method in class info.bioinfweb.commons.collections.SequenceIntervalPositionAdapterForComparable
 
compare(SimpleSequenceInterval, SimpleSequenceInterval) - Method in class info.bioinfweb.commons.collections.SimpleSequenceIntervalFirstPosComparator
 
compare(SimpleSequenceInterval, SimpleSequenceInterval) - Method in class info.bioinfweb.commons.collections.SimpleSequenceIntervalLastPosComparator
 
compare(SimpleSequenceInterval, SimpleSequenceInterval) - Method in class info.bioinfweb.commons.collections.SimpleSequenceIntervalPositionAdapter
 
compare(AcceptLanguageEntry, AcceptLanguageEntry) - Method in class info.bioinfweb.commons.servlet.acceptlanguage.QualityComparator
Returns -1 if o1.getQuality() is less than o2.getQuality(), 0 is they are equal and 1 if o1.getQuality() is greater than o2.getQuality().
compareTo(ApplicationVersion) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion
Compares two application versions.
compareTo(SimpleSequenceInterval) - Method in class info.bioinfweb.commons.collections.SimpleSequenceInterval
 
compareTo(FormatVersion) - Method in class info.bioinfweb.commons.io.FormatVersion
Returns 0 if major and minor version are equal, 1 if this version is later than the specified one and -1 if the specified version is later.
concatWithOperator(String, String, String, String, String) - Static method in class info.bioinfweb.commons.text.StringUtils
Concatenates two expressions with an operator if both are not empty.
concatWithOperator(String, String, String) - Static method in class info.bioinfweb.commons.text.StringUtils
Concatenates two expressions with an operator if both are not empty.
ConcreteSQLProperties - Class in info.bioinfweb.commons.sql.sqlproperties
Default implementation of the SQLProperties interface.
ConcreteSQLProperties() - Constructor for class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties
 
contained(String, int, int) - Method in class info.bioinfweb.commons.CommandLineReader
Checks if the given value is contained in the arguments and returns the index.
contained(String, int) - Method in class info.bioinfweb.commons.CommandLineReader
Checks if the given value is contained in the arguments and returns the index.
contained(String) - Method in class info.bioinfweb.commons.CommandLineReader
Checks if the given value is contained in the arguments and returns the index.
contains(int) - Method in class info.bioinfweb.commons.collections.NonOverlappingIntervalList
Returns true if the specified position is marked by this list.
contains(Object) - Method in class info.bioinfweb.commons.collections.SequenceIntervalList
 
contains(UndoableEdit) - Method in class info.bioinfweb.commons.swing.AccessibleUndoManager
 
contains(JFileChooser) - Method in class info.bioinfweb.commons.swing.FileChooserDirModel
 
containsAll(int, int) - Method in class info.bioinfweb.commons.collections.NonOverlappingIntervalList
Returns true if all positions in the specified interval are marked by this list.
containsAll(Collection<?>) - Method in class info.bioinfweb.commons.collections.SequenceIntervalList
 
containsKey(K) - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
containsKey(Object) - Method in class info.bioinfweb.commons.text.UniqueNameMap
 
containsPosition(int) - Method in class info.bioinfweb.commons.collections.SequenceIntervalList
 
containsRect(Rectangle, Rectangle) - Static method in class info.bioinfweb.commons.Math2
Checks if one rectangle is completely contained inside the other.
containsValue(K, V) - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
containsValue(V) - Method in class info.bioinfweb.commons.collections.MultiTreeMap
 
containsValue(Object) - Method in class info.bioinfweb.commons.text.UniqueNameMap
 
convertCamelCase(String, String) - Static method in class info.bioinfweb.commons.text.StringUtils
Converts a camel case keyword to a string with the specified separator where all characters are in lower case.
Example: anExampleKeyword would be converted to an-example-keyword and A to a.
convertSWTEventTime(int) - Static method in class info.bioinfweb.commons.tic.input.TICInputEvent
Converts a SWT event time value to a Swing time value.
convertSWTKeyCode(int) - Static method in class info.bioinfweb.commons.tic.input.TICKeyEvent
 
convertSWTKeyLocation(int) - Static method in class info.bioinfweb.commons.tic.input.TICKeyEvent
 
convertSWTStateMask(int, int) - Static method in class info.bioinfweb.commons.tic.input.TICInputEvent
 
copy(InputStream, OutputStream) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies data from an InputStream to a OutputStream.
copy(InputStream, OutputStream, boolean) - Static method in class info.bioinfweb.commons.io.IOUtils
 
copy(InputStream, OutputStream, IOProgressListener) - Static method in class info.bioinfweb.commons.io.IOUtils
 
copy(InputStream, OutputStream, boolean, IOProgressListener) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies data from an InputStream to a OutputStream.
copy(File, File, IOProgressListener) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies a file.
copy(File, File) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies a file.
copyFromResource(String, OutputStream) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies data from an InputStream to a OutputStream.
copyFromResource(String, OutputStream, IOProgressListener) - Static method in class info.bioinfweb.commons.io.IOUtils
Copies data from an InputStream to a OutputStream.
createID(Connection, String, String, int, int) - Static method in class info.bioinfweb.commons.sql.IDGenerator
Returns a random ID which is not contained in the specified column of the specified table by the time this method is called.
createID(Connection, String, String, long, long) - Static method in class info.bioinfweb.commons.sql.IDGenerator
Returns a random ID which is not contained in the specified column of the specified table by the time this method is called.
createID(Connection, String, String, String, int) - Static method in class info.bioinfweb.commons.sql.IDGenerator
Returns a random ID which is not contained in the specified column of the specified table by the time this method is called.
createIntListCond(String, List<Integer>, String) - Static method in class info.bioinfweb.commons.sql.SQLUtils
 
createLabelTable(int, int, double) - Method in class info.bioinfweb.commons.swing.DecimalInput
 
createNextID(Connection, String, String, boolean, int) - Static method in class info.bioinfweb.commons.sql.IDGenerator
Returns the next ID which is not already present in the specified table.
createNextID(Connection, String, String, boolean, long) - Static method in class info.bioinfweb.commons.sql.IDGenerator
Returns the next ID which is not already present in the specified table.
createRedoAction(UndoableEdit) - Method in class info.bioinfweb.commons.swing.AbstractUndoActionManagement
 
createSwingComponent() - Method in class info.bioinfweb.commons.tic.TICComponent
Creates the Swing component that will be associated with this instance if it was not created before.
createSWTWidget(Composite, int) - Method in class info.bioinfweb.commons.tic.TICComponent
Creates the SWT component that will be associated with this instance if it was not created before.
createUndoAction(UndoableEdit) - Method in class info.bioinfweb.commons.swing.AbstractUndoActionManagement
 
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