A B C D E F G H I J K L M N O P Q R S T U V W X Z

S

Savable - Interface in info.bioinfweb.commons.io

save() - Method in class info.bioinfweb.commons.io.AbstractSaver

save() - Method in interface info.bioinfweb.commons.io.Savable

This method should save the data to a file defined by the path and should call saveAs() if no path was assigned.

saveAs() - Method in class info.bioinfweb.commons.io.AbstractSaver

saveAs() - Method in interface info.bioinfweb.commons.io.Savable

Promts the user der select a path to save the data.

saveAs(Component) - Method in interface info.bioinfweb.commons.swing.SwingSavable

saveAs() - Method in class info.bioinfweb.commons.swing.SwingSaver

Opens a save dialog and asks the user where to save the file.

saveAs(Component) - Method in class info.bioinfweb.commons.swing.SwingSaver

Opens a save dialog and asks the user where to save the file.

saveCurrentTime(String) - Method in class info.bioinfweb.commons.testing.TestLogger

saveDataToFile(File) - Method in class info.bioinfweb.commons.io.AbstractSaver

ScrolledCompositeSyncListener - Class in info.bioinfweb.commons.swt

Selection listener that synchronizes ScrolledComposite components in horizontal or vertical direction.

ScrolledCompositeSyncListener(Collection<ScrolledComposite>, boolean) - Constructor for class info.bioinfweb.commons.swt.ScrolledCompositeSyncListener

Creates a new instance of this class which uses a deep copy of scrolledComposites.

ScrolledCompositeSyncListener(ScrolledComposite[], boolean) - Constructor for class info.bioinfweb.commons.swt.ScrolledCompositeSyncListener

Creates a new instance of this class which uses a deep copy of scrolledComposites.

ScrollPaneBidule - Class in org.jdesktop.swingx.scrollpaneselector

ScrollPaneBidule(JScrollPane) - Constructor for class org.jdesktop.swingx.scrollpaneselector.ScrollPaneBidule

ScrollPaneSelectable - Interface in info.bioinfweb.commons.swing.scrollpaneselector

Classes implementing this interface are able to paint their own preview thumbnail if they are positioned inside a JScrollPane which uses ExetededScrollPaneSelector.
Although componenets which do not implement this interface can be previewed too, the advantige of is that the component is able to paint a more sharp preview or to highlight special elements.

ScrollPaneSelector - Class in org.jdesktop.swingx.scrollpaneselector

ScrollPaneSelector is a little utility class that provides a means to quickly scroll both vertically and horizontally on a single mouse click, by dragging a selection rectangle over a "thumbnail" of the scrollPane's viewport view.

SequenceCompareUtils - Class in info.bioinfweb.commons.bio.biojava3.core.sequence

Helper class that allows to compare sequences by taking ambiguity codes into account or not.

SequenceCompareUtils() - Constructor for class info.bioinfweb.commons.bio.biojava3.core.sequence.SequenceCompareUtils

SequenceIntervalList<E> - Class in info.bioinfweb.commons.collections

Instances of this class are able to manage a set of sequence intervals.

SequenceIntervalList(SequenceIntervalPositionAdapter<? super E>) - Constructor for class info.bioinfweb.commons.collections.SequenceIntervalList

Equivalent to calling SequenceIntervalList(positionAdapter, SequenceIntervalList.DEFAULT_INITIAL_SEQUENCE_LENGTH, DEFAULT_INTERVAL_LENGTH).

SequenceIntervalList(SequenceIntervalPositionAdapter<? super E>, int, int) - Constructor for class info.bioinfweb.commons.collections.SequenceIntervalList

Creates a new instance of this class.

SequenceIntervalList.IntervalInformation - Class in info.bioinfweb.commons.collections

SequenceIntervalPositionAdapter<T> - Interface in info.bioinfweb.commons.collections

SequenceIntervalPositionAdapterForComparable<T extends java.lang.Comparable<? super T>> - Class in info.bioinfweb.commons.collections

Abstract implementation of SequenceIntervalPositionAdapter to be used with elements that already implement the Comparable interface.

SequenceIntervalPositionAdapterForComparable() - Constructor for class info.bioinfweb.commons.collections.SequenceIntervalPositionAdapterForComparable

sequencesAsList() - Method in class info.bioinfweb.commons.bio.biojava3.core.sequence.views.ConcatenatedSequenceView

Returns a list implementation that allows to edit the underlying list of viewed sequences.

sequencesEqual(Sequence<? extends Compound>, Sequence<? extends Compound>) - Static method in class info.bioinfweb.commons.bio.biojava3.core.sequence.SequenceCompareUtils

Tests if the two symbols at each according position of the two sequences are exactly equal.

sequencesEquivalent(CompoundSet<? super C>, S, S) - Static method in class info.bioinfweb.commons.bio.biojava3.core.sequence.SequenceCompareUtils

Uses the AbstractCompoundSet.compoundsEquivalent(Compound, Compound) method of the specified compound set to check if the values at each position of the two sequences are equal.

SequenceUtils - Class in info.bioinfweb.commons.bio

Useful tools to manipulate nucleotide and amino acid sequences stored as character sequences.

SequenceUtils() - Constructor for class info.bioinfweb.commons.bio.SequenceUtils

sequncesEqual(Alignment<?, ?>) - Method in class info.bioinfweb.commons.bio.biojava3.alignment.SimpleAlignment

Checks if this alignment contains the same sequences (name and sequence) as the specified one.

sequncesEqual(Alignment<?, ?>) - Method in interface info.bioinfweb.commons.bio.biojava3.alignment.template.Alignment

ServletUtils - Class in info.bioinfweb.commons.servlet

Utility class for common tasks related to servlets.

ServletUtils() - Constructor for class info.bioinfweb.commons.servlet.ServletUtils

set(int, E) - Method in class info.bioinfweb.commons.collections.ListDecorator

set(E) - Method in class info.bioinfweb.commons.collections.ListIteratorDecorator

set(long, long) - Method in class info.bioinfweb.commons.collections.PackedIntegerArrayList

Replaces the value at the specified position with the new value.

set(int, E) - Method in class info.bioinfweb.commons.collections.PackedObjectArrayList

set(int, E) - Method in class info.bioinfweb.commons.collections.PackedPrimitiveWrapperArrayList

set(int, E) - Method in class info.bioinfweb.commons.swing.ListBackedListModel

setAcceptFilesWithExceptions(boolean) - Method in class info.bioinfweb.commons.io.ContentExtensionFileFilter

Specifies whether this filter accepts files where IOExceptions were thrown while they were tested with ContentExtensionFileFilter.acceptContent(File).

setAdeninScore(double) - Method in class info.bioinfweb.commons.bio.AmbiguityBaseScore

setAllowClose(boolean) - Method in class info.bioinfweb.commons.io.LimitedInputStream

Allows to specify whether closing this input stream shall currently be prevented.

setAllowClose(boolean) - Method in class info.bioinfweb.commons.io.LimitedReader

Allows to specify whether closing this reader shall currently be prevented.

setAskToSaveMessageBeginnung(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setAskToSaveMessageEnd(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setAskToSaveTitle(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setBuildNumber(long) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion

setButtonCancel(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setButtonNo(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setButtonYes(String) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setContent(String) - Method in class info.bioinfweb.commons.tokenizer.StrToken

setCountry(String) - Method in class info.bioinfweb.commons.servlet.acceptlanguage.AcceptLanguageEntry

setCurrentDirectory(File) - Method in class info.bioinfweb.commons.swing.FileChooserDirModel

setCytosinScore(double) - Method in class info.bioinfweb.commons.bio.AmbiguityBaseScore

setDBDriver(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setDBDriver(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setDBHost(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setDBHost(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setDBName(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setDBName(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setDBPassword(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setDBPassword(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setDBUser(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setDBUser(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setDecimalFormatStr(String) - Method in class info.bioinfweb.commons.swing.DecimalInput

setDefaultExtension(String) - Method in class info.bioinfweb.commons.io.AbstractSaver

setDefaultExtension(String) - Method in interface info.bioinfweb.commons.io.Savable

setDefaultLocale() - Method in class info.bioinfweb.commons.io.InternationalFileFilter

setDefaultLocale() - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setDefaultName(String) - Method in class info.bioinfweb.commons.io.AbstractSaver

setDefaultName(String) - Method in interface info.bioinfweb.commons.io.Savable

Sets the path that should be proposed by the saveAs()-method if no path has been assigned.

setEnabled(boolean) - Method in class info.bioinfweb.commons.swing.DecimalInput

setFile(File) - Method in class info.bioinfweb.commons.io.AbstractSaver

setFile(File) - Method in interface info.bioinfweb.commons.io.Savable

Manually assignes a path.

setFillUp(boolean) - Method in class info.bioinfweb.commons.text.UniqueNameMapParameters

setFillUpChar(char) - Method in class info.bioinfweb.commons.text.UniqueNameMapParameters

setFirstPos(T, int) - Method in interface info.bioinfweb.commons.collections.SequenceIntervalPositionAdapter

setFirstPos(int) - Method in class info.bioinfweb.commons.collections.SimpleSequenceInterval

setFirstPos(SimpleSequenceInterval, int) - Method in class info.bioinfweb.commons.collections.SimpleSequenceIntervalPositionAdapter

setGapChar(char) - Method in class info.bioinfweb.commons.bio.alignment.pairwise.NeedlemanWunschAligner

setGuaninScore(double) - Method in class info.bioinfweb.commons.bio.AmbiguityBaseScore

setHelpCode(int) - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setID(int) - Method in class info.bioinfweb.commons.tokenizer.StrToken

setIsSubedit(boolean) - Method in class info.bioinfweb.commons.swing.AbstractDocumentEdit

Indicates whether this edit is independent or part of another edit.

setLanguage(String) - Method in class info.bioinfweb.commons.servlet.acceptlanguage.AcceptLanguageEntry

setLastPos(T, int) - Method in interface info.bioinfweb.commons.collections.SequenceIntervalPositionAdapter

setLastPos(int) - Method in class info.bioinfweb.commons.collections.SimpleSequenceInterval

setLastPos(SimpleSequenceInterval, int) - Method in class info.bioinfweb.commons.collections.SimpleSequenceIntervalPositionAdapter

setLineLength(int) - Method in class info.bioinfweb.commons.bio.biojava3.core.sequence.io.MapFastaWriter

setLineSeparator(String) - Method in class info.bioinfweb.commons.bio.biojava3.core.sequence.io.MapFastaWriter

setList(List<E>) - Method in class info.bioinfweb.commons.swing.ListBackedListModel

setLocale(Locale) - Method in class info.bioinfweb.commons.io.InternationalFileFilter

setLocale(Locale) - Method in class info.bioinfweb.commons.swing.SwingSaverMessages

setMajor(int) - Method in class info.bioinfweb.commons.io.FormatVersion

setMajorRelease(int) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion

setMaximumFactor(double) - Method in class info.bioinfweb.commons.swing.RelativeRangeModel

Sets the current maximum factor and recalculates the maximum.

setMaxNameLength(int) - Method in class info.bioinfweb.commons.text.UniqueNameMapParameters

setMaxTaxonNameLength(int) - Method in class info.bioinfweb.commons.bio.biojava3.alignment.io.hennig86.Hennig86Writer

setMessage(String) - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setMinor(int) - Method in class info.bioinfweb.commons.io.FormatVersion

setMinorRelease(int) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion

setName(String) - Method in class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.CharSet

setName(String) - Method in class info.bioinfweb.commons.graphics.ZoomableFont

Sets a new font name.

setNativeLF() - Static method in class info.bioinfweb.commons.swing.SwingUtils

Sets the native look and feel of the current operating system by invoking UIManager.setLookAndFeel(UIManager.getSystemLookAndFeelClassName()).

setNoOfStates(String) - Method in class info.bioinfweb.commons.bio.biojava3.alignment.io.hennig86.Hennig86Writer

setNumericValue(String, long) - Method in class info.bioinfweb.commons.testing.TestLogger

setOriginalHeight(double) - Method in class info.bioinfweb.commons.graphics.ZoomableFont

Sets a new font size for a zoom factor of 100 %.

setPatchLevel(int) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion

setPos(int) - Method in class info.bioinfweb.commons.tokenizer.StrToken

setPositionAdapter(SequenceIntervalPositionAdapter<? super E>) - Method in class info.bioinfweb.commons.collections.SequenceIntervalList

Calling this methods leads to resorting of all elements in the list.

setPrefix(String) - Method in class info.bioinfweb.commons.io.DefaultNameManager

setPrintDirectly(boolean) - Method in class info.bioinfweb.commons.testing.TestLogger

setProgressValue(double, String) - Method in class info.bioinfweb.commons.progress.AbstractProgressMonitor

setProgressValue(double) - Method in class info.bioinfweb.commons.progress.AbstractProgressMonitor

setProgressValue(double) - Method in interface info.bioinfweb.commons.progress.ProgressMonitor

setProgressValue(double, String) - Method in interface info.bioinfweb.commons.progress.ProgressMonitor

setProgressValue(double) - Method in class info.bioinfweb.commons.swing.ProgressDialog

setProgressValue(double, String) - Method in class info.bioinfweb.commons.swing.ProgressDialog

setQuality(double) - Method in class info.bioinfweb.commons.servlet.acceptlanguage.AcceptLanguageEntry

SETS_BLOCK - Static variable in class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlock

SETS_LIST_START - Static variable in class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlockParser

setSaveCanceled(boolean) - Method in class info.bioinfweb.commons.swing.FileChooserDirModel

If setSaveCanceled(true) is called the current directory is also updated if the user cancels the file chooser dialog.
Default value is true.

SetsBlock - Class in info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus

Represents a part of the contents of a SETS block of a Nexus file.

SetsBlock() - Constructor for class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlock

SetsBlockBuilder - Class in info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus

Builds a SETS Nexus block by listening to events.

SetsBlockBuilder() - Constructor for class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlockBuilder

SetsBlockListener - Interface in info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus

SetsBlockParser - Class in info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus

Parses a Nexus SETS block and fires events to a SetsBlockListener.

SetsBlockParser(SetsBlockListener) - Constructor for class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlockParser

setScoreByIndex(int, double) - Method in class info.bioinfweb.commons.bio.AmbiguityBaseScore

setSelectedItem(Object) - Method in class info.bioinfweb.commons.swing.ListBackedComboBoxModel

Sets the selected item of this model.

setSelectedItem(Object) - Method in class info.bioinfweb.commons.swing.LocaleComboBoxModel

Sets the selected item.

setSelectedLocale(Locale) - Method in class info.bioinfweb.commons.swing.LocaleComboBoxModel

setSize(double, double) - Method in class info.bioinfweb.commons.graphics.DoubleDimension

setStyle(int) - Method in class info.bioinfweb.commons.graphics.ZoomableFont

Sets a new font style.

setTablePrefix(String) - Method in class info.bioinfweb.commons.sql.sqlproperties.ConcreteSQLProperties

setTablePrefix(String) - Method in interface info.bioinfweb.commons.sql.sqlproperties.SQLProperties

setTestStrategy(ContentExtensionFileFilter.TestStrategy) - Method in class info.bioinfweb.commons.io.ContentExtensionFileFilter

Specifies a new test strategy to determine whether a file shall be accepted by this filter or not.

setThyminScore(double) - Method in class info.bioinfweb.commons.bio.AmbiguityBaseScore

setTime(Date) - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setTime(long) - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setTimeToNow() - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setType(ApplicationType) - Method in class info.bioinfweb.commons.appversion.ApplicationVersion

setType(ApplicationLoggerMessageType) - Method in class info.bioinfweb.commons.log.ApplicationLoggerMessage

setUseErrorStream(boolean) - Method in class info.bioinfweb.commons.log.ConsoleApplicationLogger

Determines whether error messages received by this logger should be written to System.err or System.out.

setValue(float) - Method in class info.bioinfweb.commons.swing.DecimalInput

setValue(double) - Method in class info.bioinfweb.commons.swing.DecimalInput

setValue(int) - Method in class info.bioinfweb.commons.swing.DecimalInput

setValue(long) - Method in class info.bioinfweb.commons.swing.DecimalInput

setValue(int) - Method in class info.bioinfweb.commons.swing.RelativeRangeModel

Sets the value of this model.

setVisible(boolean) - Method in class info.bioinfweb.commons.swing.ToolBarPopup

show(int) - Method in class info.bioinfweb.commons.swing.AboutDialog

show() - Method in class info.bioinfweb.commons.swing.ToolBarPopup

Deprecated.

show(boolean) - Method in class info.bioinfweb.commons.swing.ToolBarPopup

Deprecated.

SimpleAlignment<S extends org.biojava3.core.sequence.template.Sequence<C>,C extends org.biojava3.core.sequence.template.Compound> - Class in info.bioinfweb.commons.bio.biojava3.alignment

Default implementation of Alignment.

SimpleAlignment() - Constructor for class info.bioinfweb.commons.bio.biojava3.alignment.SimpleAlignment

SimpleSequenceInterval - Class in info.bioinfweb.commons.collections

Basic implementation representing an interval in a SequenceIntervalList.

SimpleSequenceInterval(int, int) - Constructor for class info.bioinfweb.commons.collections.SimpleSequenceInterval

SimpleSequenceIntervalFirstPosComparator - Class in info.bioinfweb.commons.collections

Comparator that compare two SimpleSequenceInterval objects simply by their first (start) position.

SimpleSequenceIntervalFirstPosComparator() - Constructor for class info.bioinfweb.commons.collections.SimpleSequenceIntervalFirstPosComparator

SimpleSequenceIntervalLastPosComparator - Class in info.bioinfweb.commons.collections

Comparator that compare two SimpleSequenceInterval objects simply by their last (end) position.

SimpleSequenceIntervalLastPosComparator() - Constructor for class info.bioinfweb.commons.collections.SimpleSequenceIntervalLastPosComparator

SimpleSequenceIntervalPositionAdapter - Class in info.bioinfweb.commons.collections

Implementation of SequenceIntervalPositionAdapter for SimpleSequenceInterval.

SimpleSequenceIntervalPositionAdapter() - Constructor for class info.bioinfweb.commons.collections.SimpleSequenceIntervalPositionAdapter

size() - Method in class info.bioinfweb.commons.bio.biojava3.alignment.SimpleAlignment

size() - Method in interface info.bioinfweb.commons.bio.biojava3.alignment.template.Alignment

size() - Method in class info.bioinfweb.commons.collections.ListDecorator

size() - Method in class info.bioinfweb.commons.collections.NonStoringCollection

Since no objects are stored in this collection its size will always be 0.

size() - Method in class info.bioinfweb.commons.collections.PackedIntegerArrayList

Returns the number of elements currently contained in this list.

size() - Method in class info.bioinfweb.commons.collections.PackedObjectArrayList

size() - Method in class info.bioinfweb.commons.collections.PackedPrimitiveWrapperArrayList

size() - Method in class info.bioinfweb.commons.collections.SequenceIntervalList

size() - Method in class info.bioinfweb.commons.io.IOProgressListenerVector

size() - Method in class info.bioinfweb.commons.swing.ActionMap

size() - Method in class info.bioinfweb.commons.text.UniqueNameMap

skip(long) - Method in class info.bioinfweb.commons.io.LimitedInputStream

skip(long) - Method in class info.bioinfweb.commons.io.LimitedReader

SQL_SET_SEPARATOR - Static variable in class info.bioinfweb.commons.sql.SQLUtils

SQLConnector - Class in info.bioinfweb.commons.sql

SQLConnector() - Constructor for class info.bioinfweb.commons.sql.SQLConnector

SQLManipulator - Class in info.bioinfweb.commons.servlet

SQLManipulator(String, String, String, String) - Constructor for class info.bioinfweb.commons.servlet.SQLManipulator

SQLProperties - Interface in info.bioinfweb.commons.sql.sqlproperties

Classes implementing this interface provide a bean to store information to connect to a SQL database.

SQLUtils - Class in info.bioinfweb.commons.sql

Utility class for common tasks related to SQL operations.

SQLUtils() - Constructor for class info.bioinfweb.commons.sql.SQLUtils

SQLXMLConstants - Interface in info.bioinfweb.commons.sql.sqlproperties

XML constants for the namespace http://bioinfweb.info/xmlns/SQLConnection.

SQLXMLReader - Class in info.bioinfweb.commons.sql.sqlproperties

Reads data necessary to connect to a SQL database.

SQLXMLReader(QName) - Constructor for class info.bioinfweb.commons.sql.sqlproperties.SQLXMLReader

Creates a new instance.

STABLE_STRING - Static variable in enum info.bioinfweb.commons.appversion.ApplicationType

START_END_SEPARATER - Static variable in class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlockParser

startBlockObject() - Method in class info.bioinfweb.commons.bio.biojavax.bio.phylo.io.nexus.SetsBlockBuilder

stateChanged(ChangeEvent) - Method in class info.bioinfweb.commons.swing.SwingChangeMonitor

STOP_CODON_CHAR - Static variable in class info.bioinfweb.commons.bio.SequenceUtils

StreamLocation - Class in info.bioinfweb.commons.io

A read only implementation of StreamLocationProvider, which can be used to store a static location.

StreamLocation(long, long, long) - Constructor for class info.bioinfweb.commons.io.StreamLocation

StreamLocation(StreamLocationProvider) - Constructor for class info.bioinfweb.commons.io.StreamLocation

StreamLocation(Location) - Constructor for class info.bioinfweb.commons.io.StreamLocation

StreamLocationProvider - Interface in info.bioinfweb.commons.io

Interface to be implemented by classes (e.g.

StreamLocationProviderOffsetComparator - Class in info.bioinfweb.commons.io

Comparator for instances of StreamLocationProvider, which uses StreamLocationProvider.getCharacterOffset() as the only comparison criterion.

StreamLocationProviderOffsetComparator() - Constructor for class info.bioinfweb.commons.io.StreamLocationProviderOffsetComparator

StringUtils - Class in info.bioinfweb.commons.text

Provides general methods to use with character sequences.

StringUtils() - Constructor for class info.bioinfweb.commons.text.StringUtils

StrToken - Class in info.bioinfweb.commons.tokenizer

StrToken() - Constructor for class info.bioinfweb.commons.tokenizer.StrToken

StrToken(int, String, int) - Constructor for class info.bioinfweb.commons.tokenizer.StrToken

StrTokenizer - Class in info.bioinfweb.commons.tokenizer

StrTokenizer() - Constructor for class info.bioinfweb.commons.tokenizer.StrTokenizer

subList(int, int) - Method in class info.bioinfweb.commons.collections.ListDecorator

sum1ToN(int) - Static method in class info.bioinfweb.commons.Math2

Returns the sum of all integers from 1 to the specified value.

SwingChangeMonitor - Class in info.bioinfweb.commons.swing

SwingChangeMonitor() - Constructor for class info.bioinfweb.commons.swing.SwingChangeMonitor

SwingDocumentApplicationLogger - Class in info.bioinfweb.commons.log

This implementation of ApplicationLogger appends all messages to a Document.

SwingDocumentApplicationLogger(Document) - Constructor for class info.bioinfweb.commons.log.SwingDocumentApplicationLogger

SwingSavable - Interface in info.bioinfweb.commons.swing

Interface for a SwingSaver.

SwingSaver - Class in info.bioinfweb.commons.swing

Implements the interface Savable with Swing-Dialogs.

SwingSaver() - Constructor for class info.bioinfweb.commons.swing.SwingSaver

SwingSaver(String) - Constructor for class info.bioinfweb.commons.swing.SwingSaver

SwingSaverMessages - Class in info.bioinfweb.commons.swing

SwingSaverMessages() - Constructor for class info.bioinfweb.commons.swing.SwingSaverMessages

SwingUtils - Class in info.bioinfweb.commons.swing

SwingUtils() - Constructor for class info.bioinfweb.commons.swing.SwingUtils

SWTUtils - Class in info.bioinfweb.commons.swt

Provides methods of general use in SWT.

SWTUtils() - Constructor for class info.bioinfweb.commons.swt.SWTUtils

symbolToNucleotideCompound(Symbol) - Static method in class info.bioinfweb.commons.bio.biojava3.core.sequence.BioJava1SymbolTranslator

SystemBrowserHyperlinkListener - Class in info.bioinfweb.commons.swing

An implementation of HyperlinkListener that opens URLs in the system browser.

SystemBrowserHyperlinkListener(Component) - Constructor for class info.bioinfweb.commons.swing.SystemBrowserHyperlinkListener

SystemBrowserHyperlinkListener() - Constructor for class info.bioinfweb.commons.swing.SystemBrowserHyperlinkListener

SystemUtils - Class in info.bioinfweb.commons

An extension of the apache commons class SystemUtils.

SystemUtils() - Constructor for class info.bioinfweb.commons.SystemUtils

It is unnecessary to create instances of this class.

A B C D E F G H I J K L M N O P Q R S T U V W X Z