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A

a95 - Variable in class net.talvi.puffinplot.data.ArasonLevi.ArithMean
α95, the 95% confidence interval, in degrees
about - Variable in class net.talvi.puffinplot.PuffinActions
Opens the application's ‘About’ dialog box.
about() - Method in class net.talvi.puffinplot.PuffinApp
Shows the application's ‘About’ dialog box, giving brief information about PuffinPlot.
AboutBox - Class in net.talvi.puffinplot.window
An ‘about this program’ dialog box giving brief information about PuffinPlot.
AboutBox(PuffinApp) - Constructor for class net.talvi.puffinplot.window.AboutBox
Creates a new about box.
actionPerformed(ActionEvent) - Method in class net.talvi.puffinplot.window.ControlPanel
Handles action events.
actionPerformed(ActionEvent) - Method in class net.talvi.puffinplot.window.ProgressDialog
 
actionPerformed(ActionEvent) - Method in class net.talvi.puffinplot.window.TreatmentWindow
Handle an action event.
add(int, T) - Method in class net.talvi.puffinplot.data.CustomFields
Adds a new value to this custom field list.
add(TreatmentStep) - Method in class net.talvi.puffinplot.data.Line
Associates a TreatmentStep with this line.
add(List<File>) - Method in class net.talvi.puffinplot.RecentFileList
Adds a new file-set to the top of the list.
add(RenderingHints) - Method in class net.talvi.puffinplot.window.PuffinRenderingHints
addCurrentTreatmentStepListener(CurrentTreatmentStepListener) - Method in class net.talvi.puffinplot.window.GraphDisplay
Add a listener for changes to the current datum (i.e. the datum related to the point under the mouse pointer).
addDecRad(double) - Method in class net.talvi.puffinplot.data.Vec3
Returns a new vector equal to this vector with the specified angle added to the declination.
addExtraLine(String) - Method in class net.talvi.puffinplot.data.file.SimpleLoadedData
Add a line to the internal extra line cache
addIncRad(double) - Method in class net.talvi.puffinplot.data.Vec3
Returns a new vector equal to this vector with the specified angle added to the inclination.
addMessage(String, Object...) - Method in class net.talvi.puffinplot.data.file.SimpleLoadedData
Add a formatted message to the internal message cache.
addPath(Path2D, boolean) - Method in class net.talvi.puffinplot.plots.LineCache
Adds a path to this cache.
addPoint(TreatmentStep, Point2D, boolean, boolean, boolean) - Method in class net.talvi.puffinplot.plots.Plot
Adds a point to this plot's internal buffer.
addSampleClickListener(SampleClickListener) - Method in class net.talvi.puffinplot.plots.Plot
Adds a listener for sample clicks to this plot.
addSavedListener(Suite.SavedListener) - Method in class net.talvi.puffinplot.data.Suite
Add a listener for the Suite's save state
addTreatmentStep(TreatmentStep) - Method in class net.talvi.puffinplot.data.file.SimpleLoadedData
Add a treatment step to the internal cache.
addTreatmentStep(TreatmentStep) - Method in class net.talvi.puffinplot.data.Sample
Adds a treatment step to this sample.
addTreatmentStep(TreatmentStep) - Method in class net.talvi.puffinplot.data.Suite
Adds a datum to the suite.
addVisibilityChangedListener(Consumer<Boolean>) - Method in class net.talvi.puffinplot.plots.Plot
Adds a listener for visibility changes to this plot.
AlignDeclinationsDialog - Class in net.talvi.puffinplot.window
A dialog allowing the user to perform declination alignment between core sections.
AlignDeclinationsDialog(PuffinApp) - Constructor for class net.talvi.puffinplot.window.AlignDeclinationsDialog
Create a new declination alignment dialog.
alignSectionDeclinations(int, double, CoreSections.TargetDeclinationType) - Method in class net.talvi.puffinplot.data.Suite
Align the declinations of core sections in this suite.It is assumed that the suite is continuous; the discrete IDs of samples are interpreted as core section identifiers.
alignSectionDeclinations - Variable in class net.talvi.puffinplot.PuffinActions
Automatically aligns declinations between core sections.
alignSections(int, double, CoreSections.TargetDeclinationType) - Method in class net.talvi.puffinplot.data.CoreSections
Aligns the declinations of these core sections from the top down.
AmsCalculationType - Enum in net.talvi.puffinplot.data
The type of a statistical calculation on AMS tensors.
AmsData - Class in net.talvi.puffinplot.data
This class holds AMS (anisotropy of magnetic susceptibility) data for a named sample.
AmsData(String, OrientationParameters, double[], double, double, double, double, double) - Constructor for class net.talvi.puffinplot.data.AmsData
Creates a new AMS data set with the data provided.
AmsLoader - Class in net.talvi.puffinplot.data.file
Turns an AGICO .ASC AMS file into a list of AmsData objects.
AmsLoader(File) - Constructor for class net.talvi.puffinplot.data.file.AmsLoader
Creates a new AMS loader for a specified file.
AmsPlot - Class in net.talvi.puffinplot.plots
A plot which shows the principal axes of anisotropy of magnetic susceptibility (AMS) tensors, and statistical means and confidence regions for groups of tensors.
AmsPlot(PlotParams) - Constructor for class net.talvi.puffinplot.plots.AmsPlot
Creates an AMS plot with the supplied parameters.
angleFromLast(Vec3) - Method in class net.talvi.puffinplot.data.GreatCircle
Returns the angle between the supplied direction and the last point on the great-circle fit.
angleTo(Vec3) - Method in class net.talvi.puffinplot.data.Vec3
Returns the signed angle between this vector and another vector.
appendFiles - Variable in class net.talvi.puffinplot.PuffinActions
Opens a dialog box allowing the user to choose one or more files to append to the current data suite.
AppleEventHandler - Class in net.talvi.puffinplot
AppleEventHandler handles the user actions About, Open, Preferences, and Quit on Mac OS X systems, passing them on to the appropriate methods of a PuffinApp instance specified on initialization.
applyTextAttributes(AttributedString) - Method in class net.talvi.puffinplot.plots.Plot
Applies this plot's standard text attributes to an attributed string.
ArasonLevi - Class in net.talvi.puffinplot.data
Calculate and store Arason-Levi Maximum Likelihood Estimates (MLE) for inclination-only data.
ArasonLevi.ArithMean - Class in net.talvi.puffinplot.data
Calculate and store mean inclination estimates based on a simple arithmetic mean.
areSectionEndDirectionsDefined(int) - Method in class net.talvi.puffinplot.data.CoreSections
Reports whether all samples within section ends have a defined direction.
areSectionEndDirectionsDefined(int) - Method in class net.talvi.puffinplot.data.Suite
Report whether samples near the ends of core sections have an associated direction, e.g. a sample direction calculated by PCA.
areTreatmentStepsLabelled() - Method in class net.talvi.puffinplot.plots.Plot
Determines whether the points should be labelled.
areTreatmentStepsLabelled() - Method in class net.talvi.puffinplot.plots.SampleEqualAreaPlot
 
areTreatmentStepsLabelled() - Method in class net.talvi.puffinplot.plots.ZPlot
 
ArmAxis - Enum in net.talvi.puffinplot.data
ArmAxis represents the axis along which an ARM (anhysteretic remanent magnetization) field has been applied.
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