ur_rna.RNAstructureUI

Class RNAstructure

java.lang.Object

ur_rna.RNAstructureUI.RNAstructure

All Implemented Interfaces:

java.io.Serializable

public class RNAstructure
extends java.lang.Object
implements java.io.Serializable

A class that starts the RNAstructure interface.

See Also:

Serialized Form

Field Summary

Fields

Modifier and Type	Field and Description
private static java.lang.String	examplesDir
static AppLog	log
static MRUFileStorage	MRUFiles
static UserOptions	options
static java.lang.String	preferencesNode
static java.lang.String	RELEASE_DATE
static java.lang.String	REQUIRED_DLL_VERSION
private static long	serialVersionUID
static java.lang.String	VERSION

Constructor Summary

Constructors

Constructor and Description
RNAstructure()

Method Summary

Modifier and Type	Method and Description
(package private) static java.lang.String	arrJoin(java.lang.Object[] arr, java.lang.String sep)
static void	createDocsFolder() This is called from within AppMainFrame during startup when the program is being run for the first time.
static void	ExtractExamples()
(package private) static boolean	fileExists(java.lang.String path)
(package private) static java.lang.String	findDataPath()
static java.io.File	getExamplesDir()
(package private) static java.lang.String	getFullPath(java.lang.String path)
static java.lang.String	getPref(java.lang.String name)
static java.lang.String	getPref(java.lang.String name, java.lang.String defaultValue)
static java.util.prefs.Preferences	getPrefs()
static boolean	isExampleFile(java.io.File f)
static void	main(java.lang.String[] args) The main method.
private static void	parseCommandArgs(java.lang.String[] args)
(package private) static void	setDataPath(java.lang.String path)
private static void	setDefaultFileOpenDir()
static void	setPref(java.lang.String name, java.lang.String value)
(package private) static void	showInfo(java.lang.String message)
(package private) static void	showWarning(java.lang.String message)
static boolean	silentMode()
(package private) static boolean	verifyDataPath()
static int	versionCompare(java.lang.String str1, java.lang.String str2) Compares two version strings.

Methods inherited from class java.lang.Object

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

Field Detail

examplesDir

private static java.lang.String examplesDir

log

public static final AppLog log

MRUFiles

public static MRUFileStorage MRUFiles

options

public static UserOptions options

preferencesNode

public static java.lang.String preferencesNode

RELEASE_DATE

public static final java.lang.String RELEASE_DATE

See Also:

Constant Field Values

REQUIRED_DLL_VERSION

public static final java.lang.String REQUIRED_DLL_VERSION

See Also:

Constant Field Values

serialVersionUID

private static final long serialVersionUID

See Also:

Constant Field Values

VERSION

public static final java.lang.String VERSION

See Also:

Constant Field Values

Constructor Detail

RNAstructure

public RNAstructure()

Method Detail

arrJoin

static java.lang.String arrJoin(java.lang.Object[] arr,
                                java.lang.String sep)

createDocsFolder

public static void createDocsFolder()

This is called from within AppMainFrame during startup when the program is being run for the first time. If the user deletes it, it will not be created again.

ExtractExamples

public static void ExtractExamples()

fileExists

static boolean fileExists(java.lang.String path)

findDataPath

static java.lang.String findDataPath()

getExamplesDir

public static java.io.File getExamplesDir()

getFullPath

static java.lang.String getFullPath(java.lang.String path)

getPref

public static java.lang.String getPref(java.lang.String name)

getPref

public static java.lang.String getPref(java.lang.String name,
                                       java.lang.String defaultValue)

getPrefs

public static java.util.prefs.Preferences getPrefs()

isExampleFile

public static boolean isExampleFile(java.io.File f)

main

public static void main(java.lang.String[] args)

The main method.

Parameters:

args - The command line arguments

parseCommandArgs

private static void parseCommandArgs(java.lang.String[] args)

setDataPath

static void setDataPath(java.lang.String path)

setDefaultFileOpenDir

private static void setDefaultFileOpenDir()

setPref

public static void setPref(java.lang.String name,
                           java.lang.String value)

showInfo

static void showInfo(java.lang.String message)

showWarning

static void showWarning(java.lang.String message)

silentMode

public static boolean silentMode()

verifyDataPath

static boolean verifyDataPath()

versionCompare

public static int versionCompare(java.lang.String str1,
                                 java.lang.String str2)

Compares two version strings. Use this instead of String.compareTo() for a non-lexicographical comparison that works for version strings. e.g. "1.10".compareTo("1.6"). Note: It does not work if "1.10" is supposed to be equal to "1.10.0".

Parameters:

str1 - a string of ordinal numbers separated by decimal points.

str2 - a string of ordinal numbers separated by decimal points.

Returns:

The result is a negative integer if str1 is _numerically_ less than str2. The result is a positive integer if str1 is _numerically_ greater than str2. The result is zero if the strings are _numerically_ equal.