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

G

g - Variable in class net.talvi.puffinplot.plots.EqAreaPlot
The graphics object to which to draw the plot.
get(int, int) - Method in class Jama.Matrix
Get a single element.
get(int) - Method in class net.talvi.puffinplot.data.CustomFields
Gets the value of a specified custom field.
get2gProtocol() - Method in class net.talvi.puffinplot.PuffinPrefs
Returns the measurement protocol used when opening 2G data files.
getA95() - Method in interface net.talvi.puffinplot.data.FisherParams
Returns the alpha-95 value denoting the 95% confidence interval.
getA95() - Method in class net.talvi.puffinplot.data.FisherValues
 
getA95() - Method in class net.talvi.puffinplot.data.GreatCircles
 
getActions() - Method in class net.talvi.puffinplot.PuffinApp
Returns the actions associated with this PuffinApp.
getAfX() - Method in class net.talvi.puffinplot.data.Datum
For AF or ARM treatment, returns the AF field strength in the x axis.
getAfY() - Method in class net.talvi.puffinplot.data.Datum
For AF or ARM treatment, returns the AF field strength in the y axis.
getAfZ() - Method in class net.talvi.puffinplot.data.Datum
For AF or ARM treatment, returns the AF field strength in the z axis.
getAll() - Method in class net.talvi.puffinplot.data.SuiteCalcs.Means
 
getAllSamplesInSelectedSites() - Method in class net.talvi.puffinplot.PuffinApp
Gets all the samples in all the sites having at least one selected sample.
getAms() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's AMS tensor.
getAmsBootstrapParams() - Method in class net.talvi.puffinplot.data.Suite
Returns the parameters of the last AMS bootstrap statistics (if any) calculated on this suite's data.
getAmsHextParams() - Method in class net.talvi.puffinplot.data.Suite
Returns the parameters of the last AMS Hext statistics (if any) calculated on this suite's data.
getAntiZoom() - Method in class net.talvi.puffinplot.window.GraphDisplay
Returns the inverse transform of the zoom transform.
getArea() - Method in class net.talvi.puffinplot.data.Datum
For continuous measurements, returns the cross-sectional area of the core.
getArmAxis() - Method in class net.talvi.puffinplot.data.Datum
For ARM treatment, returns the axis of the ARM field.
getArmField() - Method in class net.talvi.puffinplot.data.Datum
For ARM treatment, returns the ARM bias field strength.
getArray() - Method in class Jama.Matrix
Access the internal two-dimensional array.
getArrayCopy() - Method in class Jama.Matrix
Copy the internal two-dimensional array.
getAxis(int) - Method in class net.talvi.puffinplot.data.Tensor
Returns one of the tensor's three principal axes as a vector.
getAxis() - Method in class net.talvi.puffinplot.window.ControlPanel
Returns the currently selected vertical projection for the Zijderveld plot.
getAxis() - Method in interface net.talvi.puffinplot.window.PlotParams
Returns the vertical projection axis for a Zijderveld plot.
getAxisLabel() - Method in enum net.talvi.puffinplot.data.TreatType
Returns the axis label to use when plotting a graph involving this treatment.
getBuildProperty(String) - Method in class net.talvi.puffinplot.PuffinApp
Reads values from the build.properties file.
getByHeading(String) - Static method in enum net.talvi.puffinplot.data.DatumField
Returns the field whose heading string is the specified string, or null if no such field exists.
getBySample() - Method in class net.talvi.puffinplot.data.SuiteCalcs
 
getBySite() - Method in class net.talvi.puffinplot.data.SuiteCalcs
 
getCirclePoints(Correction) - Method in class net.talvi.puffinplot.data.Sample
Returns the magnetic moment vectors used for the current great-circle fit.
getCircles() - Method in class net.talvi.puffinplot.data.GreatCircles
Returns the great circles which were originally supplied to the constructor.
getCiteWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns this PuffinApp's citation window
getColumnDimension() - Method in class Jama.Matrix
Get column dimension.
getColumnHeader() - Method in enum net.talvi.puffinplot.data.MeasType
Returns a suitable column header for sample identifiers.
getColumnMap() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getColumnPackedCopy() - Method in class Jama.Matrix
Make a one-dimensional column packed copy of the internal array.
getColumnWidthsAsString() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getComponent(MeasurementAxis) - Method in class net.talvi.puffinplot.data.Vec3
Returns a specified component of this vector.
getControlPanel() - Method in class net.talvi.puffinplot.window.MainWindow
Returns the control panel for the plots displayed in this window.
getCorrection() - Method in class net.talvi.puffinplot.PuffinApp
Returns the correction currently being applied to the data displayed by this PuffinApp.
getCorrection() - Method in class net.talvi.puffinplot.window.ControlPanel
Returns the correction to apply to magnetic moment data.
getCorrection() - Method in interface net.talvi.puffinplot.window.PlotParams
Returns the correction to be applied to magnetic moment data.
getCorrectionWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns the window for user editing of correction data (sample orientation, formation orientation, geomagnetic declination)
getCurrentPageFormat() - Method in class net.talvi.puffinplot.PuffinApp
Returns the current page format.
getCurrentSample() - Method in class net.talvi.puffinplot.data.Suite
Returns the current sample
getCurrentSampleIndex() - Method in class net.talvi.puffinplot.data.Suite
Returns the index defining the current sample.
getCurrentSite() - Method in class net.talvi.puffinplot.PuffinApp
Returns the site for which data is currently being displayed.
getCustomFlagNames() - Method in class net.talvi.puffinplot.data.Suite
Returns the names (titles) of the custom flags for this suite.
getCustomFlags() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's custom flags.
getCustomNoteNames() - Method in class net.talvi.puffinplot.data.Suite
Returns the names (titles) of the custom notes for this suite.
getCustomNotes() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's custom notes.
getD() - Method in class Jama.EigenvalueDecomposition
Return the block diagonal eigenvalue matrix
getDashedStroke() - Method in class net.talvi.puffinplot.plots.Plot
Returns the default dashed stroke style.
getData() - Method in interface net.talvi.puffinplot.data.file.FileLoader
Returns the data points read from the file.
getData() - Method in class net.talvi.puffinplot.data.Sample
Returns all the data points within this sample.
getData() - Method in class net.talvi.puffinplot.data.Suite
Returns all the data points in this suite.
getDateString() - Method in class net.talvi.puffinplot.PuffinApp.Version
 
getDatum(int) - Method in class net.talvi.puffinplot.data.Sample
Returns a specified data point from this sample
getDatumByRunNumber(int) - Method in class net.talvi.puffinplot.data.Sample
Returns the datum with the highest run number which is less than the supplied run number.
getDecDeg() - Method in class net.talvi.puffinplot.data.Vec3
Returns this vector's declination in degrees.
getDecRad() - Method in class net.talvi.puffinplot.data.Vec3
Returns this vector's declination in radians.
getDefaultValue() - Method in enum net.talvi.puffinplot.data.DatumField
Currently only used in Datum.setValue(DatumField, String).
getDemagLevel() - Method in class net.talvi.puffinplot.data.MedianDestructiveField
Returns the treatment level at which the intensity of the sample's magnetic moment reached half of its initial value.
getDepth() - Method in class net.talvi.puffinplot.data.Datum
For continuous measurements, returns the depth of this measurement within the core.
getDepth() - Method in class net.talvi.puffinplot.data.Sample
Returns the depth of a this sample within a continuous long core, where applicable.
getDepthIndex() - Method in class net.talvi.puffinplot.window.SampleChooser
For long core suites, returns the current depth index.
getDescription() - Method in class net.talvi.puffinplot.data.Correction
Returns a user-friendly string describing this correction.
getDimensions() - Method in class net.talvi.puffinplot.plots.Plot
Returns the dimensions of this plot.
getDimensionsAsString() - Method in class net.talvi.puffinplot.plots.Plot
Returns a string representation of this plot's dimensions.
getDirection() - Method in class net.talvi.puffinplot.data.PcaValues
Returns the direction of the principal PCA axis.
getDirections() - Method in class net.talvi.puffinplot.data.FisherValues
Returns the directions of the vectors on which these statistics were calculated.
getDiscreteId() - Method in class net.talvi.puffinplot.data.Datum
For discrete samples, returns the sample identifier (name).
getDoublePivot() - Method in class Jama.LUDecomposition
Return pivot permutation vector as a one-dimensional double array
getEmptyFields() - Static method in class net.talvi.puffinplot.data.FisherValues
Returns a list of empty strings equal in length to the number of parameters.
getEmptyFields() - Static method in class net.talvi.puffinplot.data.GreatCircle
Returns a list of empty strings equal in length to the number of parameters.
getEmptyFields() - Static method in class net.talvi.puffinplot.data.GreatCircles
Returns a list of empty strings equal in length to the number of parameters.
getEmptyFields() - Static method in class net.talvi.puffinplot.data.MedianDestructiveField
Returns a list of empty strings equal in length to the number of parameters.
getEmptyFields() - Static method in class net.talvi.puffinplot.data.PcaAnnotated
Returns a list of empty strings equal in length to the number of parameters.
getEmptyFields() - Static method in class net.talvi.puffinplot.data.Tensor
Returns a list of empty strings equal in length to the number of parameters.
getEmptySlot() - Method in class net.talvi.puffinplot.data.Line
Returns the first Datum associated with this line which was a measurement of an empty tray slot, not an actual sample.
getEquation() - Method in class net.talvi.puffinplot.data.PcaValues
Return a Cartesian equation describing the PCA line.
getEtaDir() - Method in class net.talvi.puffinplot.data.KentParams
Returns the direction of the confidence ellipse's first axis
getEtaMag() - Method in class net.talvi.puffinplot.data.KentParams
Returns the semiangle of the confidence ellipse's first axis
getExtraLines() - Method in interface net.talvi.puffinplot.data.file.FileLoader
Returns any lines in the file which were not handled by the loader.
getExtraLines() - Method in class net.talvi.puffinplot.data.file.PplLoader
 
getFileFormat() - Method in class net.talvi.puffinplot.window.TabularImportWindow
 
getFilesAndReorder(int) - Method in class net.talvi.puffinplot.RecentFileList
Returns a specified file-set and moves it to the top of the list.
getFilesetNames() - Method in class net.talvi.puffinplot.RecentFileList
Gets a list containing the names of the file-sets in the file list.
getFirstGcStep() - Method in class net.talvi.puffinplot.data.Sample
Returns the treatment level for the first point used in the great-circle fit.
getFirstRunNumber() - Method in class net.talvi.puffinplot.data.Sample
Returns the run number for the first data point in this sample.
getFisher() - Method in class net.talvi.puffinplot.data.Site
Returns the Fisher statistics (if any) calculated for this site.
getFontSize() - Method in class net.talvi.puffinplot.plots.Plot
Returns the standard font size in plot units.
getFormationCorrectionMatrix(double, double) - Static method in class net.talvi.puffinplot.data.Vec3
Returns a matrix to correct a vector for a given formation orientation.
getFormAz() - Method in class net.talvi.puffinplot.data.Datum
Returns the formation dip azimuth.
getFormAz() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's formation dip azimuth in degrees.
getFormDip() - Method in class net.talvi.puffinplot.data.Datum
Returns the formation dip angle.
getFormDip() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's formation dip angle in degrees.
getFormStrike() - Method in class net.talvi.puffinplot.data.Datum
Returns the formation strike for this datum.
getFormStrike() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's formation strike in degrees.
getfTest() - Method in class net.talvi.puffinplot.data.AmsData
Returns the F-test value for the sample's anisotropy measurement.
getGraphDisplay() - Method in class net.talvi.puffinplot.window.MainWindow
Returns this window's graph display.
getGreatCircle() - Method in class net.talvi.puffinplot.data.Sample
Returns the current great-circle fit for this sample, if any.
getGreatCircleLimitHeader() - Static method in class net.talvi.puffinplot.data.Site
Returns headers for information on the treatment steps used for the great-circle analysis.
getGreatCircleLimitStrings() - Method in class net.talvi.puffinplot.data.Site
Returns information on the treatment steps used for the great-circle analysis.
getGreatCircles() - Method in class net.talvi.puffinplot.data.Site
Returns the great-circle parameters (if any) calculated for this site.
getH() - Method in class Jama.QRDecomposition
Return the Householder vectors
getHeaderLines() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getHeaders() - Static method in class net.talvi.puffinplot.data.FisherValues
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.GreatCircle
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.GreatCircles
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.MedianDestructiveField
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.PcaAnnotated
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.PcaValues
Returns the headers describing the parameters as a list of strings.
getHeaders() - Static method in class net.talvi.puffinplot.data.SuiteCalcs
 
getHeaders() - Static method in class net.talvi.puffinplot.data.Tensor
Returns the headers describing the parameters as a list of strings.
getHeading() - Method in enum net.talvi.puffinplot.data.DatumField
Returns the heading string for this field.
getIdOrDepth() - Method in class net.talvi.puffinplot.data.Datum
Returns sample identifier or measurement depth.
getImagEigenvalues() - Method in class Jama.EigenvalueDecomposition
Return the imaginary parts of the eigenvalues
getIncDeg() - Method in class net.talvi.puffinplot.data.Vec3
Returns this vector's inclination in degrees.
getIncRad() - Method in class net.talvi.puffinplot.data.Vec3
Returns this vector's inclination in radians.
getIndexBySample(Sample) - Method in class net.talvi.puffinplot.data.Suite
Returns the index of a specified sample within this suite.
getInstance() - Static method in class net.talvi.puffinplot.PuffinApp
Returns the single instance of PuffinApp.
getIntensity() - Method in class net.talvi.puffinplot.data.Datum
Returns the magnitude of the magnetic dipole moment per unit volume in A/m.
getIntensity() - Method in class net.talvi.puffinplot.data.MedianDestructiveField
Returns half of the intensity of the sample's initial magnetic moment.
getIrmField() - Method in class net.talvi.puffinplot.data.Datum
For IRM treatment, returns the IRM field strength.
getK() - Method in interface net.talvi.puffinplot.data.FisherParams
Returns the k-value, an estimate of the precision parameter κ.
getK() - Method in class net.talvi.puffinplot.data.FisherValues
 
getK() - Method in class net.talvi.puffinplot.data.GreatCircles
 
getL() - Method in class Jama.CholeskyDecomposition
Return triangular factor.
getL() - Method in class Jama.LUDecomposition
Return lower triangular factor
getLastGcStep() - Method in class net.talvi.puffinplot.data.Sample
Returns the treatment level for the last point used in the great-circle fit.
getLastRunNumber() - Method in class net.talvi.puffinplot.data.Sample
Returns the run number for the last data point in this sample.
getLegend() - Method in class net.talvi.puffinplot.plots.ZPlot
Returns the legend for this plot.
getLengths() - Method in class net.talvi.puffinplot.data.SensorLengths
Returns a list of string representations of the sensor lengths in the order x, y, z.
getLine() - Method in class net.talvi.puffinplot.data.Datum
Returns the measurement's data-file line.
getLoadWarnings() - Method in class net.talvi.puffinplot.data.Suite
Get the list of warnings produced when data was being loaded from one or more files.
getLower() - Method in class net.talvi.puffinplot.data.SuiteCalcs.Means
 
getM() - Method in class net.talvi.puffinplot.data.GreatCircles
Returns the number of stable endpoints used in the calculation.
getMad1() - Method in class net.talvi.puffinplot.data.Eigens
 
getMad1() - Method in class net.talvi.puffinplot.data.GreatCircle
Returns the MAD1 (planar maximum angular deviation) value for the great-circle fit.
getMad1() - Method in class net.talvi.puffinplot.data.PcaValues
Returns the maximum angle of planar deviation.
getMad3() - Method in class net.talvi.puffinplot.data.Eigens
 
getMad3() - Method in class net.talvi.puffinplot.data.PcaValues
Returns the maximum angle of linear deviation.
getMagDev() - Method in class net.talvi.puffinplot.data.Datum
Returns the local geomagnetic field declination for the sampling site.
getMagDev() - Method in class net.talvi.puffinplot.data.Sample
Returns the geomagnetic field declination at the sampling site.
getMagSus() - Method in class net.talvi.puffinplot.data.Datum
Returns the magnetic susceptibility of the sample at this stage of treatment
getMagSusJump() - Method in class net.talvi.puffinplot.data.Sample
Returns the results of the magnetic susceptibility jump calculation, if it has been performed.
getMainMenuBar() - Method in class net.talvi.puffinplot.window.MainWindow
Returns this window's menu bar.
getMainWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns this PuffinApp's main window
getMargin() - Method in class net.talvi.puffinplot.plots.Plot
Returns the size of the margin displayed when resizing the plot.
getMargin() - Method in class net.talvi.puffinplot.plots.PlotTitle
 
getMargin() - Method in class net.talvi.puffinplot.plots.SampleParamsLegend
 
getMargin() - Method in class net.talvi.puffinplot.plots.SiteParamsLegend
 
getMargin() - Method in class net.talvi.puffinplot.plots.ZPlot.ZplotLegend
 
getMatrix(int, int, int, int) - Method in class Jama.Matrix
Get a submatrix.
getMatrix(int[], int[]) - Method in class Jama.Matrix
Get a submatrix.
getMatrix(int, int, int[]) - Method in class Jama.Matrix
Get a submatrix.
getMatrix(int[], int, int) - Method in class Jama.Matrix
Get a submatrix.
getMaxDepth() - Method in class net.talvi.puffinplot.data.Suite
For a continuous suite, returns the maximum depth of a sample within the suite.
getMdf() - Method in class net.talvi.puffinplot.data.Sample
Returns the results of the MDF calculation if it has been performed, or null if not.
getMean() - Method in class net.talvi.puffinplot.data.KentParams
Returns the mean direction
getMeanDirection() - Method in interface net.talvi.puffinplot.data.FisherParams
Returns the mean direction.
getMeanDirection() - Method in class net.talvi.puffinplot.data.FisherValues
 
getMeanDirection() - Method in class net.talvi.puffinplot.data.GreatCircles
Returns the best-fit mean direction for the supplied circles and directions.
getMeanDirection() - Method in class net.talvi.puffinplot.data.Site
Returns the Fisherian parameters of the site mean direction.
getMeasType() - Method in class net.talvi.puffinplot.data.Datum
Returns the type of this measurement (discrete or continuous).
getMeasType() - Method in class net.talvi.puffinplot.data.Sample
Returns the measurement type of this sample (discrete or continuous).
getMeasType() - Method in class net.talvi.puffinplot.data.Suite
Returns the measurement type of this suite (discrete or continuous)
getMeasurementType() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getMessages() - Method in interface net.talvi.puffinplot.data.file.FileLoader
Returns any messages produced during the loading process.
getMinDepth() - Method in class net.talvi.puffinplot.data.Suite
For a continuous suite, returns the minimum depth of a sample within the suite.
getMoment() - Method in class net.talvi.puffinplot.data.Datum
Strictly speaking, the name is not quite accurate: we do not deal with magnetic moment (which would be in Am2) but in magnetic dipole moment per unit volume (in A/m).
getMoment(Correction) - Method in class net.talvi.puffinplot.data.Datum
Returns the measured magnetic dipole moment per unit volume, as modified by the supplied correction.
getN() - Method in class net.talvi.puffinplot.data.GreatCircles
Returns the number of great circles used in the calculation.
getName() - Method in class net.talvi.puffinplot.data.AmsData
Returns the sample's name.
getName() - Method in class net.talvi.puffinplot.data.Suite
Returns the name of this suite.
getName() - Method in class net.talvi.puffinplot.plots.AmsPlot
Returns this plot's internal name.
getName() - Method in class net.talvi.puffinplot.plots.DemagPlot
Returns this plot's internal name.
getName() - Method in class net.talvi.puffinplot.plots.DemagTable
Returns the internal plot name for this table.
getName() - Method in class net.talvi.puffinplot.plots.NrmHistogram
Returns this plot's internal name.
getName() - Method in class net.talvi.puffinplot.plots.Plot
Returns an internal name for this plot.
getName() - Method in class net.talvi.puffinplot.plots.PlotTitle
 
getName() - Method in class net.talvi.puffinplot.plots.SampleEqAreaPlot
 
getName() - Method in class net.talvi.puffinplot.plots.SampleParamsLegend
 
getName() - Method in class net.talvi.puffinplot.plots.SampleParamsTable
 
getName() - Method in class net.talvi.puffinplot.plots.SeparateSuiteEaPlot
Returns this plot's internal name.
getName() - Method in class net.talvi.puffinplot.plots.SiteEqAreaPlot
 
getName() - Method in class net.talvi.puffinplot.plots.SiteParamsLegend
 
getName() - Method in class net.talvi.puffinplot.plots.SiteParamsTable
 
getName() - Method in class net.talvi.puffinplot.plots.SuiteEqAreaPlot
 
getName() - Method in class net.talvi.puffinplot.plots.TernaryPlot
 
getName() - Method in class net.talvi.puffinplot.plots.ZPlot
 
getName() - Method in class net.talvi.puffinplot.plots.ZPlot.ZplotLegend
 
getNameOrDepth() - Method in class net.talvi.puffinplot.data.Sample
Returns the sample identifier or depth.
getNDirs() - Method in class net.talvi.puffinplot.data.FisherValues
Returns the number of directions used to calculate these Fisherian parameters.
getNiceName() - Method in enum net.talvi.puffinplot.data.Correction.Rotation
Returns a user-friendly name for this rotation correction.
getNiceName() - Method in enum net.talvi.puffinplot.data.DatumField
Returns this field's ‘nice name’ (string representation for display to user)
getNiceName() - Method in enum net.talvi.puffinplot.data.TreatType
Returns a user-friendly name for this treatment.
getNiceName() - Method in class net.talvi.puffinplot.plots.AmsPlot
Returns this plot's user-friendly name.
getNiceName() - Method in class net.talvi.puffinplot.plots.DemagPlot
Returns this plot's user-friendly name.
getNiceName() - Method in class net.talvi.puffinplot.plots.DemagTable
Returns the user-friendly plot name for this table.
getNiceName() - Method in class net.talvi.puffinplot.plots.NrmHistogram
Returns this plot's user-friendly name.
getNiceName() - Method in class net.talvi.puffinplot.plots.Plot
Returns a user-friendly name for this plot.
getNiceName() - Method in class net.talvi.puffinplot.plots.PlotTitle
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SampleEqAreaPlot
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SampleParamsLegend
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SampleParamsTable
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SiteEqAreaPlot
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SiteParamsLegend
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SiteParamsTable
 
getNiceName() - Method in class net.talvi.puffinplot.plots.SuiteEqAreaPlot
 
getNiceName() - Method in class net.talvi.puffinplot.plots.TernaryPlot
 
getNiceName() - Method in class net.talvi.puffinplot.plots.ZPlot
 
getNiceName() - Method in class net.talvi.puffinplot.plots.ZPlot.ZplotLegend
 
getNrm() - Method in class net.talvi.puffinplot.data.Sample
Returns the intensity of the sample's natural remanent magnetization (NRM).
getNumData() - Method in class net.talvi.puffinplot.data.Sample
Returns the number of data points within this sample.
getNumSamples() - Method in class net.talvi.puffinplot.data.Suite
Returns the number of samples in this suite.
getOrigin() - Method in class net.talvi.puffinplot.data.PcaValues
Returns the origin for the PCA fit.
getOsxPointVersion() - Method in class net.talvi.puffinplot.PuffinApp
If this PuffinApp is running on Mac OS X, this method returns the point version (minor version) of the operating system.
getPcaAnnotated() - Method in class net.talvi.puffinplot.data.Sample
Returns the annotated results of the last PCA calculation.
getPcaValues() - Method in class net.talvi.puffinplot.data.PcaAnnotated
Returns the results of the principal component analysis.
getPcaValues() - Method in class net.talvi.puffinplot.data.Sample
Returns the results of the last PCA calculation.
getPivot() - Method in class Jama.LUDecomposition
Return pivot permutation vector
getPlot() - Method in class net.talvi.puffinplot.window.SiteMeanWindow
Returns the single plot in this window's graph display.
getPlot() - Method in class net.talvi.puffinplot.window.SuiteEqAreaWindow
Returns the single equal-area plot contained in this window's graph display.
getPlotByClassName(String) - Method in class net.talvi.puffinplot.window.GraphDisplay
Returns the plot with a specified class name.
getPlots() - Method in class net.talvi.puffinplot.window.GraphDisplay
Returns a collection of all the plots in this graph display.
getPlotSize(String) - Method in class net.talvi.puffinplot.PuffinPrefs
Gives the configured size and position for a specified plot.
getPlotSizeString() - Method in class net.talvi.puffinplot.window.GraphDisplay
Returns a string representation of all this display's plot sizes and positions.
getPoints() - Method in class net.talvi.puffinplot.data.GreatCircle
Returns the normalized points to which the great circle was fitted.
getPole() - Method in class net.talvi.puffinplot.data.GreatCircle
Returns a pole to the fitted great circle.
getPrefs() - Method in class net.talvi.puffinplot.PuffinApp
Returns the preferences for this PuffinApp.
getPrefs() - Method in class net.talvi.puffinplot.PuffinPrefs
Returns the underlying Preferences object which holds the preferences.
getPreset() - Method in class net.talvi.puffinplot.data.SensorLengths
Returns the name of the preset sensor lengths, if any.
getPresetNames() - Static method in class net.talvi.puffinplot.data.SensorLengths
Returns the names of the hard-coded preset sensor lengths.
getPuffinFile() - Method in class net.talvi.puffinplot.data.Suite
Returns the name of the PuffinPlot file associated with this suite, if any.
getQ() - Method in class Jama.QRDecomposition
Generate and return the (economy-sized) orthogonal factor
getR() - Method in class Jama.QRDecomposition
Return the upper triangular factor
getRealEigenvalues() - Method in class Jama.EigenvalueDecomposition
Return the real parts of the eigenvalues
getRealFieldHeadings() - Static method in enum net.talvi.puffinplot.data.DatumField
Returns an unmodifiable list of the headings of the real fields.
getRealFields() - Static method in enum net.talvi.puffinplot.data.DatumField
Returns an unmodifiable list of the real fields.
getRecentFiles() - Method in class net.talvi.puffinplot.PuffinApp
Returns the list of recently used files.
getRotation() - Method in class net.talvi.puffinplot.data.Correction
Returns the rotation correction.
getRowDimension() - Method in class Jama.Matrix
Get row dimension.
getRowPackedCopy() - Method in class Jama.Matrix
Make a one-dimensional row packed copy of the internal array.
getRunNumber() - Method in class net.talvi.puffinplot.data.Datum
Returns the number of the machine run during which this measurement was made.
getS() - Method in class Jama.SingularValueDecomposition
Return the diagonal matrix of singular values
getSampAz() - Method in class net.talvi.puffinplot.data.Datum
Returns the sample's dip azimuth.
getSampAz() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's dip azimuth in degrees.
getSampDip() - Method in class net.talvi.puffinplot.data.Datum
Returns the sample's dip angle.
getSampDip() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's dip angle in degrees.
getSampHade() - Method in class net.talvi.puffinplot.data.Datum
Returns the sample hade for this datum.
getSampHade() - Method in class net.talvi.puffinplot.data.Sample
Returns this sample's hade in degrees.
getSample() - Method in class net.talvi.puffinplot.data.Datum
Returns the sample of which this measurement was made.
getSample() - Method in class net.talvi.puffinplot.PuffinApp
Gets the current Sample
getSample() - Method in interface net.talvi.puffinplot.window.PlotParams
Returns the sample to plot.
getSampleAz() - Method in class net.talvi.puffinplot.data.AmsData
Returns the sample's dip azimuth in degrees.
getSampleByIndex(int) - Method in class net.talvi.puffinplot.data.Suite
Returns the sample with the specified index.
getSampleByName(String) - Method in class net.talvi.puffinplot.data.Suite
Returns a sample from this suite with the specified name, or null if no such sample exists.
getSampleChooser() - Method in class net.talvi.puffinplot.window.MainWindow
Returns this window's sample chooser.
getSampleCorrectionMatrix(double, double) - Static method in class net.talvi.puffinplot.data.Vec3
Returns a matrix to correct a vector for a given sample orientation.
getSampleDip() - Method in class net.talvi.puffinplot.data.AmsData
Returns the sample's dip in degrees.
getSamples() - Method in class net.talvi.puffinplot.data.Site
Returns the samples in this site
getSamples() - Method in class net.talvi.puffinplot.data.Suite
Returns all the samples in this suite.
getSelectedData() - Method in class net.talvi.puffinplot.data.Sample
Returns all the selected data points within this sample.
getSelectedSamples() - Method in class net.talvi.puffinplot.PuffinApp
Gets all the currently selected samples.
getSelectedSamples() - Method in class net.talvi.puffinplot.window.SampleChooser
Returns all the currently selected samples.
getSelectedSites() - Method in class net.talvi.puffinplot.PuffinApp
Gets all the sites containing any of the currently selected samples.
getSelectionBitSet() - Method in class net.talvi.puffinplot.data.Sample
Returns the selected data point indices as a bit set.
getSensorLengths() - Method in class net.talvi.puffinplot.PuffinPrefs
Returns the effective sensor lengths for opening 2G data files.
getSeparator() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getSingularValues() - Method in class Jama.SingularValueDecomposition
Return the one-dimensional array of singular values
getSite() - Method in class net.talvi.puffinplot.data.Sample
Returns the site for this sample.
getSiteByName(String) - Method in class net.talvi.puffinplot.data.Suite
Returns a site with the given name, or null if this suite contains no such site.
getSiteEqAreaWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns the great-circle statistics window.
getSiteFishers() - Method in class net.talvi.puffinplot.data.Suite
Returns the results of the per-site Fisher statistics calculated by Suite.calculateSiteFishers(net.talvi.puffinplot.data.Correction).
getSites() - Method in class net.talvi.puffinplot.data.Suite
Returns the sites within this suite.
getSlotNumber() - Method in class net.talvi.puffinplot.data.Datum
Returns the number of the measurement tray slot in which the sample was measured.
getSlotNumber() - Method in class net.talvi.puffinplot.data.Sample
Returns the tray slot number for discrete samples.
getStroke() - Method in class net.talvi.puffinplot.plots.Plot
Returns the default solid stroke style.
getSuite() - Method in class net.talvi.puffinplot.data.Datum
Returns the data suite containing this measurement.
getSuite() - Method in class net.talvi.puffinplot.data.Sample
Returns the suite containing this sample.
getSuite() - Method in class net.talvi.puffinplot.PuffinApp
Returns the current Suite.
getSuiteEqAreaWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns the suite equal-area plot window.
getSuiteMeans() - Method in class net.talvi.puffinplot.data.Suite
Returns the Fisher parameters calculated on the entire suite.
getSuites() - Method in class net.talvi.puffinplot.PuffinApp
Returns all the Suites currently open within this PuffinApp.
getTableWindow() - Method in class net.talvi.puffinplot.PuffinApp
Returns the data table window.
getTau() - Method in class net.talvi.puffinplot.data.KentParams
Returns the tau value (eigenvalue of normalized mean susceptibility tensor).
getTauSigma() - Method in class net.talvi.puffinplot.data.KentParams
Returns (95% confidence region for tau)
getTemp() - Method in class net.talvi.puffinplot.data.Datum
For thermal treatment, returns the temperature in degrees Celsius.
getTensor() - Method in class net.talvi.puffinplot.data.AmsData
Returns the sample's susceptibility tensor.
getTextAttributes() - Method in class net.talvi.puffinplot.plots.Plot
Returns this plot's standard text attributes.
getTickLength() - Method in class net.talvi.puffinplot.plots.Plot
Returns the standard length of an axis tick in plot units.
getTimestamp() - Method in class net.talvi.puffinplot.data.Datum
Returns the timestamp of this measurement.
getTrayCorrection(Datum) - Method in class net.talvi.puffinplot.data.Suite
Returns the tray correction for the specified data point.
getTreatmentLevel() - Method in class net.talvi.puffinplot.data.Datum
Returns a numerical representation of the intensity of the treatment which was applied immediately before this measurement.
getTreatmentType() - Method in class net.talvi.puffinplot.data.file.FileFormat
 
getTreatType() - Method in class net.talvi.puffinplot.data.Datum
Returns the treatment applied before this measurement (AF, thermal, etc.).
getU() - Method in class Jama.LUDecomposition
Return upper triangular factor
getU() - Method in class Jama.SingularValueDecomposition
Return the left singular vectors
getUnit() - Method in enum net.talvi.puffinplot.data.TreatType
The units in which this treatment is quantified.
getUnitSize() - Method in class net.talvi.puffinplot.plots.Plot
Returns the size of a plot unit in Java 2D units.
getUpper() - Method in class net.talvi.puffinplot.data.SuiteCalcs.Means
 
getV() - Method in class Jama.EigenvalueDecomposition
Return the eigenvector matrix
getV() - Method in class Jama.SingularValueDecomposition
Return the right singular vectors
getValue(DatumField) - Method in class net.talvi.puffinplot.data.Datum
Returns a String representation of a value from a specified data field.
getValues() - Method in class net.talvi.puffinplot.data.Eigens
Returns the eigenvalues in decreasing order.
getVectors() - Method in class net.talvi.puffinplot.data.Eigens
Returns the eigenvectors in order of decreasing eigenvalue.
getVersion() - Method in class net.talvi.puffinplot.PuffinApp
 
getVersionString() - Method in class net.talvi.puffinplot.PuffinApp.Version
 
getVisibleData() - Method in class net.talvi.puffinplot.data.Sample
Returns all the visible (non-hidden) data points within this sample.
getVisiblePlots() - Method in class net.talvi.puffinplot.window.GraphDisplay
Returns a list of the plots which are currently visible.
getVolume() - Method in class net.talvi.puffinplot.data.Datum
For discrete measurements, returns the volume of the sample.
getXDrift() - Method in class net.talvi.puffinplot.data.Datum
Returns the x drift correction value.
getYDrift() - Method in class net.talvi.puffinplot.data.Datum
Returns the y drift correction value.
getYearRange() - Method in class net.talvi.puffinplot.PuffinApp.Version
 
getZDrift() - Method in class net.talvi.puffinplot.data.Datum
Returns the z drift correction value.
getZetaDir() - Method in class net.talvi.puffinplot.data.KentParams
Returns the direction of the confidence ellipse's second axis
getZetaMag() - Method in class net.talvi.puffinplot.data.KentParams
Returns the semiangle of the confidence ellipse's second axis
GraphDisplay - Class in net.talvi.puffinplot.window
A graphical UI component which lays out and draws one or more plots.
GreatCircle - Class in net.talvi.puffinplot.data
This class represents a list of unit vectors and a best-fit great-circle path through them.
GreatCircle(List<Vec3>) - Constructor for class net.talvi.puffinplot.data.GreatCircle
Constructs a best-fitting great circle for the supplied vectors.
greatCircleAnalysis - Variable in class net.talvi.puffinplot.PuffinActions
Determines a site mean through McFadden and McElhinny great-circle intersection.
greatCirclePoints(int, boolean) - Method in class net.talvi.puffinplot.data.Vec3
Returns a list of equally spaced points around a great circle having this vector as its pole.
GreatCircles - Class in net.talvi.puffinplot.data
This class represents a set of great circles and a set of directions.
GreatCircles(List<Vec3>, List<GreatCircle>) - Constructor for class net.talvi.puffinplot.data.GreatCircles
Calculates a mean direction from the supplied great circle and directions.
guess(File) - Static method in enum net.talvi.puffinplot.data.FileType
Attempts to guess the type of a file from its name and contents.

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