Constant Field Values


Contents
org.proteinshader.*

org.proteinshader.graphics.Cylinder
public static final int MIN_CAP_TILING 3
public static final int MIN_SLICES 3
public static final int MIN_STACKS 1

org.proteinshader.graphics.FrenetFrames
public static final double AXIS_RADIUS 0.05
public static final int FRAMES_PER_SEGMENT 11
public static final double MAJOR_AXIS_SCALE 1.5
public static final double MAJOR_SPHERE_RADIUS 0.3
public static final int MAJOR_SPHERE_TILING 30
public static final double MINOR_AXIS_SCALE 0.5
public static final double MINOR_SPHERE_RADIUS 0.0375
public static final int MINOR_SPHERE_TILING 10
public static final int SLICES 10
public static final float SPECULAR_EXP 20.0f
public static final int STACKS 1
public static final double TIP_FRACTION 0.2
public static final double TIP_RADIUS 0.08

org.proteinshader.graphics.Ribbon
public static final double ALPHA_HEIGHT 4.0
public static final float ALPHA_S_COORD_END 1.0f
public static final float ALPHA_S_COORD_START 0.0f
public static final int ALPHA_STACKS 10
public static final float ALPHA_THIN_SIDE_S_MAX 0.125f
public static final float ALPHA_THIN_SIDE_S_MIN 0.0f
public static final double ALPHA_WIDTH 0.5
public static final double BETA_HEIGHT 4.0
public static final float BETA_S_COORD_END 1.0f
public static final float BETA_S_COORD_START 0.0f
public static final int BETA_STACKS 10
public static final float BETA_THIN_SIDE_S_MAX 0.125f
public static final float BETA_THIN_SIDE_S_MIN 0.0f
public static final double BETA_WIDTH 0.5
public static final double LOOP_HEIGHT 1.0
public static final float LOOP_S_COORD_END 0.75f
public static final float LOOP_S_COORD_START 0.25f
public static final int LOOP_STACKS 10
public static final float LOOP_THIN_SIDE_S_MAX 0.125f
public static final float LOOP_THIN_SIDE_S_MIN 0.0f
public static final double LOOP_WIDTH 0.25

org.proteinshader.graphics.Shape
public static final double HALF_PI 1.57079632679489
public static final double PI 3.14159265358979
public static final double TWO_PI 6.28318530717958

org.proteinshader.graphics.Silhouette
public static final boolean DEFAULT true

org.proteinshader.graphics.Sphere
public static final int MIN_TILING 3

org.proteinshader.graphics.Tube
public static final double ALPHA_RADIUS 1.5
public static final int ALPHA_SLICES 20
public static final int ALPHA_STACKS 10
public static final double BETA_RADIUS 1.5
public static final int BETA_SLICES 20
public static final int BETA_STACKS 10
public static final double LOOP_RADIUS 0.75
public static final int LOOP_SLICES 10
public static final int LOOP_STACKS 10
public static final float S_MAX 2.0f
public static final float S_MIN 0.0f

org.proteinshader.graphics.adapter.StructureToGraphics
public static final boolean AUTO_TILING true

org.proteinshader.graphics.displaylists.CylinderReferences
public static final double COEFFICIENT 29.059
public static final int DEFAULT_CAP_TILING 5
public static final double DEFAULT_HEIGHT 1.0
public static final double DEFAULT_RADIUS 0.15
public static final int DEFAULT_SLICES 10
public static final int DEFAULT_STACKS 1
public static final double EXPONENT -0.5267
public static final int MAX_SLICES 14

org.proteinshader.graphics.displaylists.SphereReferences
public static final double COEFFICIENT 226.1
public static final double DEFAULT_RADIUS 1.0
public static final int DEFAULT_TILING 12
public static final double EXPONENT -0.7367
public static final int MAX_TILING 57

org.proteinshader.graphics.shader.ShaderProgramFactory
public static final String SHADER_DIRECTORY "./../shaders/"

org.proteinshader.graphics.textures.TextureFactory
public static final String BEND_CONFIG "bend_textures.conf"
public static final String BEND_DIRECTORY "./../textures/bend/"
public static final String HALFTONING_CONFIG "halftoning_textures.conf"
public static final String HALFTONING_DIRECTORY "./../textures/halftoning/"
public static final String PATTERNS_CONFIG "patterns_textures.conf"
public static final String PATTERNS_DIRECTORY "./../textures/patterns/"

org.proteinshader.graphics.typography.GLF2GlyphSetFactory
public static final int BYTES_PER_PIXEL 2
public static final int DATA_TYPE 5121
public static final int FORMAT 6410

org.proteinshader.graphics.typography.GLF2Header
public static final int BYTES_PER_PIXEL 2
public static final int CHAR_INFO_BYTES 24
public static final int END_INDEX 16
public static final int HEADER_BYTES 24
public static final int HEIGHT_INDEX 8
public static final int START_INDEX 12
public static final int WIDTH_INDEX 4
public static final int X1_INDEX 8
public static final int X2_INDEX 16
public static final int Y1_INDEX 12
public static final int Y2_INDEX 20

org.proteinshader.graphics.typography.GlyphSetFactoryFactory
public static final String FONT_DIRECTORY "./../fonts/"

org.proteinshader.graphics.typography.TextLabel
public static final int HEIGHT 32
public static final int WIDTH 128

org.proteinshader.graphics.typography.TextLabelManager
public static final int BYTES_PER_PIXEL 2
public static final String MAP "textLabelMap"
public static final int TABLA_RASA_HEIGHT 128
public static final int TABLA_RASA_WIDTH 64
public static final int X_OFFSET 15
public static final int Y_OFFSET 0

org.proteinshader.gui.ProteinShaderGUI
public static final int BOTTOM_MARGIN 60
public static final int TOP_MARGIN 30

org.proteinshader.gui.ProteinShaderSplasher
public static final String IMAGE_FILE "ProteinShaderLogo.png"
public static final long MIN_SPLASH_TIME 5000L

org.proteinshader.gui.components.SpringLoadedJFrame
public static final double DEFAULT_LONG_FACTOR 0.9
public static final double DEFAULT_SHORT_FACTOR 0.5
public static final int DELAY 10
public static final double INCREMENT 0.05
public static final double MAX_HEIGHT_FACTOR 0.9
public static final double MAX_WIDTH_FACTOR 0.9
public static final double MIN_HEIGHT_FACTOR 0.1
public static final double MIN_WIDTH_FACTOR 0.1

org.proteinshader.gui.components.controlpanel.AntialiasingPanel
public static final String MENU_NAME "Antialiasing"

org.proteinshader.gui.components.controlpanel.AtomColorPanel
public static final String MENU_NAME "Atom Color"

org.proteinshader.gui.components.controlpanel.AtomScalePanel
public static final String MENU_NAME "Atom Scale"
public static final double SCALE_INCREMENT 0.1
public static final double SCALE_INIT 1.0
public static final double SCALE_MAX 10.0
public static final double SCALE_MIN 0.1

org.proteinshader.gui.components.controlpanel.AtomVisibilityPanel
public static final String MENU_NAME "Atom Visibility"

org.proteinshader.gui.components.controlpanel.CartoonColorPanel
public static final String MENU_NAME "Cartoon Color"

org.proteinshader.gui.components.controlpanel.CartoonSideChainsPanel
public static final String MENU_NAME "Cartoon Side Chains"

org.proteinshader.gui.components.controlpanel.CartoonVisibilityPanel
public static final String MENU_NAME "Cartoon Visibility"

org.proteinshader.gui.components.controlpanel.DecorationsPanel
public static final String MENU_NAME "Decorations"

org.proteinshader.gui.components.controlpanel.MotionPanel
public static final int MAX_SPEED 90
public static final String MENU_NAME "Motion"
public static final int MIN_SPEED -90
public static final int X_SPEED_INIT 0
public static final int Y_SPEED_INIT 5

org.proteinshader.gui.components.controlpanel.OptimizePanel
public static final String MENU_NAME "Tiling"
public static final int SPINNER_MAX 100
public static final int SPINNER_MIN 3

org.proteinshader.gui.components.controlpanel.SelectorPanel
public static final int DIALOG_HEIGHT 300
public static final int DIALOG_WIDTH 150

org.proteinshader.gui.components.controlpanel.VisibilityPanel
public static final int SLIDER_INIT 75

org.proteinshader.gui.components.menubar.AboutBox
public static final int EXTRA_HEIGHT 90
public static final int EXTRA_WIDTH 40

org.proteinshader.gui.components.menubar.FileMenu
public static final String DATA_DIRECTORY "./../data"
public static final String IMAGES_DIRECTORY "./../images"

org.proteinshader.gui.components.menubar.HelpMenu
public static final String HELP_FILE "../help/index.html"
public static final String IMAGE_FILE "ProteinShaderLogo.png"
public static final String SOURCEFORGE_WEB_SITE "http://proteinshader.sourceforge.net"

org.proteinshader.gui.listeners.CanvasMouseListener
public static final int B1_MASK 16
public static final int B2_MASK 8
public static final int B3_MASK 4
public static final int CAMERA_XY_SCALE 2
public static final int CAMERA_ZOOM_SCALE 4
public static final int WHEEL_SCALE_FACTOR 2

org.proteinshader.gui.utils.FileExtensionFilter
public static final String DEFAULT_EXTENSION ".txt"

org.proteinshader.gui.utils.FpsLabel
public static final String FONT_DIRECTORY "./../fonts/"
public static final String FONT_FILE "ArialBold18.glf"

org.proteinshader.gui.utils.ImageFileChooser
public static final String DEFAULT_FILENAME "canvas"

org.proteinshader.gui.viewing.Camera
public static final double FOVY 60.0
public static final double HALF_FOVY 30.0
public static final double HALF_FOVY_RADIANS 0.5235987755982988
public static final int MIN_INITIAL_CAMERA_DISTANCE 20

org.proteinshader.gui.viewing.Rotation
public static final double HALF_PI 1.57079632679489
public static final double PI 3.14159265358979
public static final double RADIANS_PER_DEGREE 0.017453292519943278
public static final double TWO_PI 6.28318530717958

org.proteinshader.math.HermiteDemo
public static final int SEGMENTS 10

org.proteinshader.math.LocalFrameDemo
public static final int BANNER_WIDTH 70

org.proteinshader.math.Point3d
public static final String DECIMAL_FORMAT "0.000"

org.proteinshader.math.Quaternion
public static final String DECIMAL_FORMAT "0.000"
public static final double MIN_THETA 0.01
public static final double ONE_DEGREE 0.017453292519943295

org.proteinshader.math.QuaternionDemo
public static final int BANNER_WIDTH 70

org.proteinshader.math.SlerpDemo
public static final int BANNER_WIDTH 72

org.proteinshader.math.Vec3d
public static final String DECIMAL_FORMAT "0.000"

org.proteinshader.structure.Drawable
public static final float DEFAULT_ALPHA 1.0f
public static final float DEFAULT_BLUE 0.0f
public static final float DEFAULT_GREEN 0.0f
public static final double DEFAULT_RADIUS 1.0
public static final float DEFAULT_RED 0.0f
public static final float DEFAULT_SPECULAR_EXP 20.0f

org.proteinshader.structure.Heterogen
public static final String HETEROGEN_PREFIX "HET_"

org.proteinshader.structure.Segment
public static final double MAX_BEND 0.59

org.proteinshader.structure.Structure
public static final int SERIAL_NO_CACHE_CAPACITY 2000

org.proteinshader.structure.enums.AtomEnum
public static final double BALL_SCALE 0.2

org.proteinshader.structure.factory.BetaStrandSegmentFactory
public static final double HALF_PI 1.5707963267948966

org.proteinshader.structure.factory.SegmentFactory
public static final double MAX_CA_DISTANCE 4.5
public static final double SEGMENT_LENGTH 2.6

org.proteinshader.structure.io.PDBLineParser
public static final String DEFAULT_CHAIN_ID "A"
public static final String DEFAULT_MODEL_ID "1"
public static final int MIN_CHAR_PER_LINE 80

org.proteinshader.structure.io.PDBStructureReader
public static final int MIN_CHAR_IN_HEADER 80

org.proteinshader.structure.io.TubeVertices
public static final double ALPHA_RADIUS 1.5
public static final int ALPHA_SLICES 20
public static final int ALPHA_STACKS 10
public static final double BETA_RADIUS 1.5
public static final int BETA_SLICES 20
public static final int BETA_STACKS 10
public static final double HALF_PI 1.57079632679489
public static final double LOOP_RADIUS 0.75
public static final int LOOP_SLICES 10
public static final int LOOP_STACKS 10
public static final double PI 3.14159265358979
public static final double TWO_PI 6.28318530717958

org.proteinshader.structure.io.demos.PDBStructureReaderDemo
public static final String PATH "edu/harvard/fas/jrweber/molecular/structure/io/demos/"
public static final String usageMessage "USAGE: java -cp . edu/harvard/fas/jrweber/molecular/structure/io/demos/PDBStructureReaderDemo inputFilename outputFilename"

org.proteinshader.structure.io.demos.SegmentDemo
public static final String PATH "edu/harvard/fas/jrweber/molecular/structure/io/demos/"
public static final String usageMessage "USAGE: java -cp . edu/harvard/fas/jrweber/molecular/structure/io/demos/SegmentDemo inputFilename outputFilename"

org.proteinshader.structure.visitor.BondPredictor
public static final double DEFAULT_MIN_BOND_LENGTH 0.4
public static final double DEFAULT_TOLERANCE 0.56

org.proteinshader.structure.visitor.FrenetFrameGeneratorVisitor
public static final double MAX_CA_DISTANCE 4.5

org.proteinshader.structure.visitor.SFWriterVisitor
public static final int CHAR_PER_LINE 80
public static final int INDENTATION_FACTOR 2

org.proteinshader.structure.visitor.demos.ModifierVisitorDemo
public static final String PATH "edu/harvard/fas/jrweber/molecular/structure/visitor/demos/"
public static final String usageMessage "USAGE: java -cp . edu/harvard/fas/jrweber/molecular/structure/visitor/demos/ModifierVisitorDemo inputFilename outputFilename"

org.proteinshader.structure.visitor.demos.VisitorDemo
public static final String PATH "edu/harvard/fas/jrweber/molecular/structure/visitor/demos/"
public static final String usageMessage "USAGE: java -cp . edu/harvard/fas/jrweber/molecular/structure/visitor/demos/VisitorDemo filename"



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