Serialized Form

Package Acquisition
- Class Acquisition.AcquisitionDialog
  
  class AcquisitionDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    channelListPanelArea
    
    JPanel channelListPanelArea
    
    currentChannelListPanel
    
    ChannelListPanel currentChannelListPanel
    
    currentDaqSystem
    
    DaqSystem currentDaqSystem
    
    dcTimeconstant
    
    JTextField dcTimeconstant
    
    deviceSpecificPanel
    
    JComponent deviceSpecificPanel
    
    deviceType
    
    JComboBox deviceType
    
    mainPanel
    
    JPanel mainPanel
    
    nChannels
    
    JTextField nChannels
    
    offlineDAQDialogPanel
    
    OfflineFileDialogPanel offlineDAQDialogPanel
    
    ppsDialogPanel
    
    PPSDialogPanel ppsDialogPanel
    
    preampGain
    
    JTextField preampGain
    
    sampleRate
    
    JTextField sampleRate
    
    standardChannelListPanel
    
    ChannelListPanel standardChannelListPanel
    
    subtractDC
    
    JCheckBox subtractDC
    
    vPeak2Peak
    
    JTextField vPeak2Peak
- Class Acquisition.AcquisitionParameters
  
  class AcquisitionParameters extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    channelList
    
    int[] channelList
    
    List of channels data are acquired from (not necessarily 0,1,2, etc.) With NI boards, this has become a pain since if multiple boards are used, there may be repeats within this list.
    
    daqSystemType
    
    String daqSystemType
    
    dcTimeConstant
    
    double dcTimeConstant
    
    hydrophoneList
    
    int[] hydrophoneList
    
    Hydrophone list is a short list of length equal to the number of channels, so if your channel list does not start at zero, you have to first use the channelListIndexes before using this lookup table.
    
    nChannels
    
    int nChannels
    
    ppsParameters
    
    PPSParameters ppsParameters
    
    preamplifier
    
    Preamplifier preamplifier
    
    sampleRate
    
    float sampleRate
    
    subtractDC
    
    boolean subtractDC
    
    voltsPeak2Peak
    
    double voltsPeak2Peak
- Class Acquisition.CheckWavFileHeaders
  
  class CheckWavFileHeaders extends PamDialog implements Serializable
  - Serialized Fields
    
    allFiles
    
    ArrayList<File> allFiles
    
    checkFilesWorker
    
    Acquisition.CheckWavFileHeaders.CheckFiles checkFilesWorker
    
    doneFiles
    
    int doneFiles
    
    folder
    
    File folder
    
    folderInputSystem
    
    FolderInputSystem folderInputSystem
    
    folderName
    
    JLabel folderName
    
    nErrors
    
    int nErrors
    
    nFiles
    
    int nFiles
    
    progressBar
    
    JProgressBar progressBar
    
    ran
    
    boolean ran
    
    running
    
    boolean running
    
    subFolders
    
    boolean subFolders
    
    textArea
    
    JTextArea textArea
- Class Acquisition.FileInputParameters
  
  class FileInputParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bitDepth
    
    int bitDepth
    
    realTime
    
    boolean realTime
    
    recentFiles
    
    ArrayList<String> recentFiles
    
    A list of the recent files or folders selected.
    
    repeatLoop
    
    boolean repeatLoop
    
    Repeat in an infinite loop
    
    skipStartFileTime
    
    long skipStartFileTime
    
    Skip a section an initial section of the file in millis. For example, use with SoundTrap calibration values.
    
    systemType
    
    String systemType
- Class Acquisition.FolderInputParameters
  
  class FolderInputParameters extends FileInputParameters implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    mergeFiles
    
    boolean mergeFiles
    
    selectedFileNames
    
    String[] selectedFileNames
    
    subFolders
    
    boolean subFolders
- Class Acquisition.SoundCardParameters
  
  class SoundCardParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    deviceNumber
    
    int deviceNumber
    
    systemType
    
    String systemType
Package Acquisition.filedate
- Class Acquisition.filedate.FileDateDialog
  
  class FileDateDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    additionalOffset
    
    JTextField additionalOffset
    
    allowCustomFormats
    
    boolean allowCustomFormats
    
    autoFormat
    
    JRadioButton autoFormat
    
    customDateTimeFormat
    
    JTextField customDateTimeFormat
    
    daylightSaving
    
    JCheckBox daylightSaving
    
    forcePCTime
    
    JCheckBox forcePCTime
    
    manualFormat
    
    JRadioButton manualFormat
    
    soundTrapDate
    
    JPanel soundTrapDate
    
    standardFileDateSettings
    
    StandardFileDateSettings standardFileDateSettings
    
    timeZoneIds
    
    String[] timeZoneIds
    
    timeZones
    
    JComboBox<String> timeZones
- Class Acquisition.filedate.StandardFileDateSettings
  
  class StandardFileDateSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    additionalOffsetMillis
    
    long additionalOffsetMillis
    
    adjustDaylightSaving
    
    boolean adjustDaylightSaving
    
    dateTimeFormatToUse
    
    String dateTimeFormatToUse
    
    Date-time format to use. Currently only used when reading Soundtrap XML files
    
    forcedDateFormat
    
    String forcedDateFormat
    
    format to force the type of date string. otherwise it's automatic
    
    forcePCTime
    
    boolean forcePCTime
    
    timeZoneName
    
    String timeZoneName
    
    useBespokeFormat
    
    boolean useBespokeFormat
Package Acquisition.gpstiming
- Class Acquisition.gpstiming.PPSParameters
  
  class PPSParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    gpsPPSChannel
    
    int gpsPPSChannel
    
    gpsPPSNmeaSource
    
    String gpsPPSNmeaSource
    
    gpsPPSThreshold
    
    double gpsPPSThreshold
    
    storageInterval
    
    int storageInterval
    
    useGpsPPS
    
    boolean useGpsPPS
Package Acquisition.sud
- Class Acquisition.sud.PamSudParams
  
  class PamSudParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    zeroPad
    
    boolean zeroPad
    
    Zero padding fills gaps in sud files with zeros - these gaps are usually due to errors in the recording hardware.Without zero pad then time drift within a file can be difficult to predict, however zero padding means the sample numbers in other files e.g. csv sensor files will not align.
- Class Acquisition.sud.SudAudioSettingsPane.SudSettingsPanel
  
  class SudSettingsPanel extends PamPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    zeroPadSud
    
    JCheckBox zeroPadSud
Package AirgunDisplay
- Class AirgunDisplay.AirgunDimensionsDrawing
  
  class AirgunDimensionsDrawing extends ShipDimensionsDrawing implements Serializable
  - Serialized Fields
    
    airgunSymbol
    
    PamSymbol airgunSymbol
    
    dimE
    
    double dimE
- Class AirgunDisplay.AirgunParameters
  
  class AirgunParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dimE
    
    double dimE
    
    distance in m towards the stern from the vessels GPS receiver
    
    dimF
    
    double dimF
    
    distance in m towards the starboard side from the vessels GPS receiver
    
    exclusionColor
    
    Color exclusionColor
    
    Colour for exclusion zone on map.
    
    exclusionRadius
    
    int exclusionRadius
    
    radius of exclusion xone in m
    
    fixedPosition
    
    LatLong fixedPosition
    
    gunDepth
    
    double gunDepth
    
    Gun depth in metres.
    
    gunsMMSIVessel
    
    int gunsMMSIVessel
    
    mmsi number of vessel if guns are on another vessel
    
    gunsReferencePosition
    
    int gunsReferencePosition
    
    gunsThisVessel
    
    boolean gunsThisVessel
    
    True if guns are on this vessel
    
    hasGunsReferencePosition
    
    boolean hasGunsReferencePosition
    
    predictAhead
    
    boolean predictAhead
    
    predict where we'll be in a certain time
    
    secondsAhead
    
    int secondsAhead
    
    prediction time in seconds
    
    showExclusionZone
    
    boolean showExclusionZone
    
    Show exclusion zone on the map
- Class AirgunDisplay.AirgunParametersDialog
  
  class AirgunParametersDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    airgunParameters
    
    AirgunParameters airgunParameters
    
    exclusionPanel
    
    AirgunDisplay.AirgunParametersDialog.ExclusionPanel exclusionPanel
    
    fieldNames
    
    String[] fieldNames
    
    shipDimensionsFields
    
    ShipDimensionsFields shipDimensionsFields
    
    shipDrawing
    
    ShipDimensionsPanel shipDrawing
    
    shipIDPanel
    
    AirgunDisplay.AirgunParametersDialog.ShipIDPanel shipIDPanel
Package AIS
- Class AIS.AISDataUnit
  
  class AISDataUnit extends PamDataUnit implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    aisChannel
    
    String aisChannel
    
    When provided, the AIS channel is indicated as either "1" or "2." This channel indication is relative to the operating conditions of the transponder when the packet is received. This field shall be null when the channel identification is not provided.
    
    aisLocalisation
    
    AISLocalisation aisLocalisation
    
    charData
    
    String charData
    
    Contents of the M.1371 radio message using the six-bit field type
    The maximum string length of encapsulation is limited such that the total number of sentence characters does not exceed 82. This field supports a maximum of 62 valid characters for messages transferred using multiple sentences, and 63 valid characters for messages using a single sentence.
    
    dataType
    
    String dataType
    
    AIVDM, etc.
    
    fillBits
    
    int fillBits
    
    Number of "fill-bits" added to complete the last six-bit character
    Each character in the preceding six-bit coded character string represents six binary bits. This parameter indicates the number of bits that were added to the end of the binary packet as a result of creating the last character of the string. When the coding of the last six-bit character of the message packet does not create additional "fill-bits," this value shall be set to zero. The value "0" indicates that no "fill-bits" were added. This field may not be null.
    
    isInRange
    
    boolean isInRange
    
    Flag used when a limit is placed on range. If it's clearly out of range, then this flag is set and no more updates are made from static data.
    the flag can be set false again if new position data come within range.
    
    messageId
    
    int messageId
    
    Pulled out from the start of the AIVDM string.
    
    mmsiNumber
    
    int mmsiNumber
    
    newUnit
    
    boolean newUnit
    
    positionReports
    
    ArrayList<AISPositionReport> positionReports
    
    sentenceNumber
    
    int sentenceNumber
    
    Message sentence number
    
    sequentialIdentifier
    
    int sequentialIdentifier
    
    The "message sequential identifier" is a number from 0 to 9 that is sequentially assigned as needed. This identifier is incremented for each new multi-sentence message. The count resets to 0, after 9 is used. For radio broadcast messages requiring multiple sentences, each sentence of the message contains the same sequential identification number. The purpose of this number is to link the separate sentences containing portions of the same radio message. This allows for the possibility that other sentences might be interleaved with the message sentences that contain the complete message contents. This number also links an ABK-sentence acknowledgement to the appropriate BBM-sentence.
    
    staticData
    
    AISStaticData staticData
    
    stationType
    
    StationType stationType
    
    totalSentences
    
    int totalSentences
    
    Total number of sentences needed to transfer the message
- Class AIS.AISDisplayDialog
  
  class AISDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    aisParameters
    
    AISParameters aisParameters
    
    predictionArrow
    
    JCheckBox predictionArrow
    
    predictionTime
    
    JTextField predictionTime
    
    showTail
    
    JCheckBox showTail
    
    tailLength
    
    JTextField tailLength
- Class AIS.AISParameters
  
  class AISParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    limitRange
    
    boolean limitRange
    
    Only record AIS data within maxRange_kn of the vessel
    
    maxRange_km
    
    double maxRange_km
    
    Maximum range for AIS data. Data further off than this will be ignored.
    
    nmeaSource
    
    String nmeaSource
    
    predictionLength
    
    int predictionLength
    
    Prediction length in seconds
    
    showPredictionArrow
    
    boolean showPredictionArrow
    
    showTail
    
    boolean showTail
    
    tailLength
    
    int tailLength
    
    Tail length in minutes.
- Class AIS.AISPositionReport
  
  class AISPositionReport extends AISReport implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    commsState
    
    int commsState
    
    courseOverGround
    
    double courseOverGround
    
    dataIndicator
    
    int dataIndicator
    
    dataTerminalReady
    
    int dataTerminalReady
    
    latLong
    
    LatLong latLong
    
    messageId
    
    int messageId
    
    navigationStatus
    
    int navigationStatus
    
    positionAccuracy
    
    int positionAccuracy
    
    rateOfTurn
    
    double rateOfTurn
    
    repeatIndicator
    
    int repeatIndicator
    
    reportOk
    
    boolean reportOk
    
    speedOverGround
    
    double speedOverGround
    
    timeMilliseconds
    
    long timeMilliseconds
    
    trueHeading
    
    double trueHeading
    
    utcHours
    
    int utcHours
    
    utcMinutes
    
    int utcMinutes
    
    utcSeconds
    
    int utcSeconds
- Class AIS.AISReport
  
  class AISReport extends Object implements Serializable
  
  serialVersionUID:
  
  0L
- Class AIS.AISSettingsDialog
  
  class AISSettingsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    aisParameters
    
    AISParameters aisParameters
    
    limitRange
    
    JCheckBox limitRange
    
    maxRange
    
    JTextField maxRange
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class AIS.AISStaticData
  
  class AISStaticData extends AISReport implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    callSign
    
    String callSign
    
    classBPart
    
    int classBPart
    
    dataClass
    
    String dataClass
    
    destination
    
    String destination
    
    dimA
    
    double dimA
    
    dimB
    
    double dimB
    
    dimC
    
    double dimC
    
    dimD
    
    double dimD
    
    etaDay
    
    int etaDay
    
    etaHour
    
    int etaHour
    
    etaMilliseconds
    
    long etaMilliseconds
    
    etaMinute
    
    int etaMinute
    
    etaMonth
    
    int etaMonth
    
    imoNumber
    
    int imoNumber
    
    offPosition
    
    boolean offPosition
    
    shipName
    
    String shipName
    
    shipType
    
    int shipType
    
    staticDraught
    
    double staticDraught
    
    virtualAidFlag
    
    boolean virtualAidFlag
Package alarm
- Class alarm.AlarmDialog
  
  class AlarmDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    alarmActionBoxes
    
    JCheckBox[] alarmActionBoxes
    
    alarmActionButtons
    
    JButton[] alarmActionButtons
    
    alarmControl
    
    AlarmControl alarmControl
    
    alarmCount
    
    JTextField[] alarmCount
    
    alarmInterval
    
    JTextField alarmInterval
    
    alarmParameters
    
    AlarmParameters alarmParameters
    
    alarmTime
    
    JTextField alarmTime
    
    countType
    
    JComboBox<String> countType
    
    holdTime
    
    JTextField holdTime
    
    settingsButton
    
    JButton settingsButton
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class alarm.AlarmParameters
  
  class AlarmParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    countIntervalMillis
    
    long countIntervalMillis
    
    countType
    
    int countType
    
    dataSourceName
    
    String dataSourceName
    
    enabledActions
    
    boolean[] enabledActions
    
    hadHold
    
    boolean hadHold
    
    holdSeconds
    
    int holdSeconds
    
    Default time to hold data for.
    
    minAlarmIntervalMillis
    
    long minAlarmIntervalMillis
    
    triggerCounts
    
    double[] triggerCounts
Package alarm.actions.email
- Class alarm.actions.email.SendEmailSettings
  
  class SendEmailSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    attachScreenshot
    
    boolean attachScreenshot
    
    fromAddress
    
    String fromAddress
    
    host
    
    String host
    
    port
    
    String port
    
    sendOnAmber
    
    boolean sendOnAmber
    
    sendOnRed
    
    boolean sendOnRed
    
    toAddress
    
    String toAddress
    
    username
    
    String username
- Class alarm.actions.email.SendEmailSettingsDialog
  
  class SendEmailSettingsDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    attachScreenshot
    
    JCheckBox attachScreenshot
    
    emailSettings
    
    SendEmailSettings emailSettings
    
    fromAddress
    
    JTextField fromAddress
    
    host
    
    JTextField host
    
    port
    
    JTextField port
    
    sendEmailAction
    
    SendEmailAction sendEmailAction
    
    sendOnAmber
    
    JCheckBox sendOnAmber
    
    sendOnRed
    
    JCheckBox sendOnRed
    
    toAddress
    
    JTextField toAddress
    
    username
    
    JTextField username
Package alarm.actions.serial
- Class alarm.actions.serial.AlarmSerialDialog
  
  class AlarmSerialDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    printStrings
    
    JCheckBox printStrings
    
    serialPanel
    
    SerialPortPanel serialPanel
    
    serialSettings
    
    AlarmSerialSettings serialSettings
- Class alarm.actions.serial.AlarmSerialSettings
  
  class AlarmSerialSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bitsPerSecond
    
    int bitsPerSecond
    
    dataBits
    
    int dataBits
    
    flowControl
    
    int flowControl
    
    makeLineFeed
    
    Boolean makeLineFeed
    
    Flag to say always put a line feed on a string.
    
    parity
    
    int parity
    
    portName
    
    String portName
    
    printStrings
    
    boolean printStrings
    
    stopBits
    
    int stopBits
Package alarm.actions.sound
- Class alarm.actions.sound.PlaySoundDialog
  
  class PlaySoundDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    levelPanels
    
    alarm.actions.sound.PlaySoundDialog.LevelPanel[] levelPanels
    
    playSound
    
    PlaySound playSound
    
    playSoundParams
    
    PlaySoundParams playSoundParams
- Class alarm.actions.sound.PlaySoundParams
  
  class PlaySoundParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    soundFile
    
    File[] soundFile
Package alarm.actions.udp
- Class alarm.actions.udp.AlarmUDPDialog
  
  class AlarmUDPDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    alarmUDPParams
    
    AlarmUDPParams alarmUDPParams
    
    udpAddr
    
    JTextField udpAddr
    
    udpPort
    
    JTextField udpPort
- Class alarm.actions.udp.AlarmUDPParams
  
  class AlarmUDPParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    destAddr
    
    String destAddr
    
    destPort
    
    int destPort
Package amplifier
- Class amplifier.AmpDialog
  
  class AmpDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    ampControl
    
    AmpControl ampControl
    
    ampGain
    
    JTextField[] ampGain
    
    ampParameters
    
    AmpParameters ampParameters
    
    invert
    
    JCheckBox[] invert
    
    labels
    
    JLabel[] labels
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class amplifier.AmpParameters
  
  class AmpParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    gain
    
    double[] gain
    
    gain is stored as a simple facter (NOT dB) for speed of use. The dialog where they are set may well convert to dB values.
    
    rawDataSource
    
    int rawDataSource
Package analogarraysensor
- Class analogarraysensor.ArraySensorParams
  
  class ArraySensorParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    arrayDisplayParameters
    
    ArrayDisplayParameters arrayDisplayParameters
    
    readIntervalMillis
    
    int readIntervalMillis
Package analogarraysensor.swing
- Class analogarraysensor.swing.AnalogSensorDialog
  
  class AnalogSensorDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    analogDialogPanel
    
    PamDialogPanel analogDialogPanel
    
    analogSensorControl
    
    ArraySensorControl analogSensorControl
    
    analogSensorParams
    
    ArraySensorParams analogSensorParams
    
    logRawData
    
    JCheckBox logRawData
    
    nStreamers
    
    int nStreamers
    
    readInterval
    
    JTextField readInterval
    
    streamerText
    
    JTextField streamerText
Package analoginput
- Class analoginput.AnalogDeviceParams
  
  class AnalogDeviceParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    calibrationTable
    
    Hashtable<Integer,CalibrationData> calibrationTable
    
    channelRangeData
    
    Hashtable<Integer,AnalogRangeData> channelRangeData
    
    channelTable
    
    Hashtable<Integer,Integer> channelTable
- Class analoginput.AnalogInputParams
  
  class AnalogInputParams extends Object implements Serializable
  
  serialVersionUID:
  
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  - Serialized Fields
    
    selectedType
    
    String selectedType
- Class analoginput.AnalogRangeData
  
  class AnalogRangeData extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analogType
    
    AnalogRangeData.AnalogType analogType
    
    range
    
    double[] range
- Exception Class analoginput.AnalogReadException
  
  class AnalogReadException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package analoginput.brainboxes
- Class analoginput.brainboxes.BrainBoxParams
  
  class BrainBoxParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analogDeviceParams
    
    AnalogDeviceParams analogDeviceParams
    
    ipAddress
    
    String ipAddress
Package analoginput.calibration
- Class analoginput.calibration.CalibrationData
  
  class CalibrationData extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    params
    
    double[] params
- Exception Class analoginput.calibration.CalibrationException
  
  class CalibrationException extends Exception implements Serializable
Package analoginput.measurementcomputing
- Class analoginput.measurementcomputing.MCCParameters
  
  class MCCParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analogDeviceParams
    
    AnalogDeviceParams analogDeviceParams
    
    deviceNumber
    
    int deviceNumber
    
    Really the device index, not the device number.
Package angleMeasurement
- Class angleMeasurement.AngleCalibrationDialog
  
  class AngleCalibrationDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    angleCalibration
    
    AngleCalibration angleCalibration
    
    angleControl
    
    AngleControl angleControl
    
    angleParameters
    
    AngleParameters angleParameters
    
    calibrationPanel
    
    angleMeasurement.AngleCalibrationDialog.CalibrationPanel calibrationPanel
    
    latestRawAngle
    
    Double latestRawAngle
    
    measuredCorrection
    
    angleMeasurement.AngleCalibrationDialog.MeasuredCorrection measuredCorrection
    
    paramErrors
    
    boolean paramErrors
    
    plotPanel
    
    angleMeasurement.AngleCalibrationDialog.PlotPanel plotPanel
    
    trueToMeasured
    
    angleMeasurement.AngleCalibrationDialog.TrueToMeasured trueToMeasured
- Class angleMeasurement.AngleLoggingParameters
  
  class AngleLoggingParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    logAngles
    
    int logAngles
    
    logInterval
    
    double logInterval
    
    timedRandom
    
    boolean timedRandom
- Class angleMeasurement.AngleParameters
  
  class AngleParameters extends Object implements Serializable
  
  serialVersionUID:
  
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  - Serialized Fields
    
    angleLoggingParameters
    
    AngleLoggingParameters angleLoggingParameters
    
    angleOffset
    
    double angleOffset
    
    calibrationData
    
    double[] calibrationData
    
    This is the raw calibration data, and is probably the oposote of what we want, but it's the way we want to measure it - i..e it's the output of the 3030 (or other device and a measured real angle. I'll write some funcitons to convert the other way !
    
    calibrationInterval
    
    int calibrationInterval
    
    geoReferenceAngle
    
    double geoReferenceAngle
- Class angleMeasurement.FluxgateWorldDialog
  
  class FluxgateWorldDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    angleLoggingDialogPanel
    
    AngleLoggingDialogPanel angleLoggingDialogPanel
    
    cancelZero
    
    JButton cancelZero
    
    currentCorrectedAngle
    
    JLabel currentCorrectedAngle
    
    currentRawAngle
    
    JLabel currentRawAngle
    
    dontGet
    
    boolean dontGet
    
    fluxgateWorldAngles
    
    FluxgateWorldAngles fluxgateWorldAngles
    
    fluxgateWorldParameters
    
    FluxgateWorldParameters fluxgateWorldParameters
    
    geoReferenceAngle
    
    JTextField geoReferenceAngle
    
    invertAngles
    
    JCheckBox invertAngles
    
    latestRawAngle
    
    Double latestRawAngle
    
    readRateList
    
    JComboBox readRateList
    
    serialPortPanel
    
    SerialPortPanel serialPortPanel
    
    setZero
    
    JButton setZero
    
    timer
    
    Timer timer
- Class angleMeasurement.FluxgateWorldParameters
  
  class FluxgateWorldParameters extends AngleParameters implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    invertAngles
    
    boolean invertAngles
    
    portName
    
    String portName
    
    readRateIndex
    
    int readRateIndex
Package angleVetoes
- Class angleVetoes.AngleVeto
  
  class AngleVeto extends Object implements Serializable
  
  serialVersionUID:
  
  -7457498080588517537L
  - Serialized Fields
    
    channels
    
    int channels
    
    endAngle
    
    double endAngle
    
    startAngle
    
    double startAngle
- Class angleVetoes.AngleVetoDialog
  
  class AngleVetoDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    angleVeto
    
    AngleVeto angleVeto
    
    endAngle
    
    JTextField endAngle
    
    startAngle
    
    JTextField startAngle
- Class angleVetoes.AngleVetoesDialog
  
  class AngleVetoesDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    addButton
    
    JButton addButton
    
    angleVetoes
    
    AngleVetoes angleVetoes
    
    angleVetoParameters
    
    AngleVetoParameters angleVetoParameters
    
    deleteButton
    
    JButton deleteButton
    
    editbutton
    
    JButton editbutton
    
    list
    
    PamTable list
    
    tableData
    
    AbstractTableModel tableData
- Class angleVetoes.AngleVetoParameters
  
  class AngleVetoParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    vetoList
    
    ArrayList<AngleVeto> vetoList
Package annotation
- Class annotation.AnnotationDialog
  
  class AnnotationDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    dataAnnotationType
    
    DataAnnotationType dataAnnotationType
    
    dataUnit
    
    PamDataUnit dataUnit
    
    dialogPanel
    
    AnnotationDialogPanel dialogPanel
    
    okButton
    
    boolean okButton
    
    summaryPanel
    
    DataUnitSummaryPanel summaryPanel
- Class annotation.AnnotationSettingsDialog
  
  class AnnotationSettingsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    annotationType
    
    DataAnnotationType annotationType
    
    dialogPanel
    
    AnnotationSettingsPanel dialogPanel
    
    okPressed
    
    boolean okPressed
Package annotation.calcs.snr
- Class annotation.calcs.snr.SNRAnnotationOptions
  
  class SNRAnnotationOptions extends AnnotationOptions implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    snrAnnotationParameters
    
    SNRAnnotationParameters snrAnnotationParameters
- Class annotation.calcs.snr.SNRAnnotationParameters
  
  class SNRAnnotationParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bufferMillis
    
    int bufferMillis
    
    Buffer between both the start and end of the sound being measured and the noise measurement period
    
    noiseMillis
    
    int noiseMillis
    
    Number of millis to measure over both before and after the sound of interest.
Package annotation.dataselect
- Class annotation.dataselect.ScalarDataParams
  
  class ScalarDataParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxValue
    
    double maxValue
    
    minValue
    
    double minValue
Package annotation.handler
- Class annotation.handler.AnnotationChoices
  
  class AnnotationChoices extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    allowMany
    
    boolean allowMany
    
    annotationOptions
    
    Hashtable<String,AnnotationOptions> annotationOptions
- Class annotation.handler.AnnotationOptions
  
  class AnnotationOptions extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    annotationName
    
    String annotationName
    
    isSelected
    
    boolean isSelected
Package annotation.localise.targetmotion
- Class annotation.localise.targetmotion.TMAnnotationOptions
  
  class TMAnnotationOptions extends AnnotationOptions implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    localisationParams
    
    ClickLocParams localisationParams
Package annotation.string
- Class annotation.string.StringAnnotationOptions
  
  class StringAnnotationOptions extends AnnotationOptions implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxLength
    
    int maxLength
Package annotation.userforms
- Class annotation.userforms.UserFormAnnotationOptions
  
  class UserFormAnnotationOptions extends AnnotationOptions implements Serializable
  
  serialVersionUID:
  
  -8028334325731182581L
  - Serialized Fields
    
    udfFormName
    
    String udfFormName
- Class annotation.userforms.UserFormSymbolOptions
  
  class UserFormSymbolOptions extends SymbolModifierParams implements Serializable
  - Serialized Fields
    
    controlTitle
    
    String controlTitle
Package annotationMark
- Class annotationMark.MarkAnnotationDialog
  
  class MarkAnnotationDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    annotationDataUnit
    
    MarkDataUnit annotationDataUnit
    
    annotationModule
    
    MarkModule annotationModule
    
    annotationTypes
    
    List<DataAnnotationType<?>> annotationTypes
    
    dialogPanels
    
    ArrayList<AnnotationDialogPanel> dialogPanels
    
    duration
    
    PamTextDisplay duration
    
    fRange
    
    PamTextDisplay fRange
    
    startTime
    
    PamTextDisplay startTime
Package annotationMark.spectrogram
- Class annotationMark.spectrogram.SpectrogramMarkDialog
  
  class SpectrogramMarkDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    annotationHandler
    
    SpectrogramMarkAnnotationHandler annotationHandler
    
    annotationPanel
    
    AnnotationsSelectionPanel annotationPanel
    
    spectrogramAnnotationModule
    
    SpectrogramAnnotationModule spectrogramAnnotationModule
- Class annotationMark.spectrogram.SpectrogramMarkParams
  
  class SpectrogramMarkParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    annotationChoices
    
    AnnotationChoices annotationChoices
Package Array
- Class Array.ArrayDialog
  
  class ArrayDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    cancelButton
    
    JButton cancelButton
    
    channelPanel
    
    ChannelPanel channelPanel
    
    copyArrayButton
    
    JButton copyArrayButton
    
    deleteArrayButton
    
    JButton deleteArrayButton
    
    environmentPanel
    
    EnvironmentPanel environmentPanel
    
    exportArrayButton
    
    JButton exportArrayButton
    
    helpButton
    
    JButton helpButton
    
    hydrophoneDiagram
    
    HydrophoneDiagram hydrophoneDiagram
    
    hydrophoneDialogPanel
    
    HydrophoneDialogPanel hydrophoneDialogPanel
    
    importArrayButton
    
    JButton importArrayButton
    
    instrumentIdentityPanel
    
    InstrumentIdentityPanel instrumentIdentityPanel
    
    newArrayButton
    
    JButton newArrayButton
    
    okButton
    
    JButton okButton
    
    renameArrayButton
    
    JButton renameArrayButton
    
    selectedArray
    
    PamArray selectedArray
- Class Array.ArrayParameters
  
  class ArrayParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    arrayList
    
    ArrayList<PamArray> arrayList
- Class Array.EmptyLocatorSettings
  
  class EmptyLocatorSettings extends LocatorSettings implements Serializable
  
  serialVersionUID:
  
  1L
- Class Array.Hydrophone
  
  class Hydrophone extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bandwidth
    
    double[] bandwidth
    
    coordinate
    
    double[] coordinate
    
    coordinateError
    
    double[] coordinateError
    
    dontInvertDepth
    
    boolean dontInvertDepth
    
    iD
    
    int iD
    
    preampGain
    
    double preampGain
    
    sensitivity
    
    double sensitivity
    
    streamerId
    
    int streamerId
    
    timeMillis
    
    long timeMillis
    
    type
    
    String type
- Class Array.HydrophoneElementDialog
  
  class HydrophoneElementDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    coordinatePanel
    
    Array.HydrophoneElementDialog.CoordinatePanel coordinatePanel
    
    currentArray
    
    PamArray currentArray
    
    generalPanel
    
    Array.HydrophoneElementDialog.GeneralPanel generalPanel
    
    hydrophone
    
    Hydrophone hydrophone
    
    interpolationDialogPanel
    
    InterpolationDialogPanel interpolationDialogPanel
- Class Array.HydrophoneLocator
  
  class HydrophoneLocator extends Object implements Serializable
  
  serialVersionUID:
  
  3820622344712667731L
  - Serialized Fields
    
    pamArray
    
    PamArray pamArray
    
    streamer
    
    Streamer streamer
- Class Array.LocatorSettings
  
  class LocatorSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    locatorClass
    
    Class locatorClass
    
    Hydrophone locator class - now specific to each streamer.
- Class Array.MasterLocator
  
  class MasterLocator extends HydrophoneLocator implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    pamArray
    
    PamArray pamArray
    
    phoneToStreamerLUT
    
    int[] phoneToStreamerLUT
- Class Array.MovingHydrophoneLocator
  
  class MovingHydrophoneLocator extends SimpleHydrophoneLocator implements Serializable
  
  serialVersionUID:
  
  -7448060427072317265L
- Class Array.PamArray
  
  class PamArray extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    arrayFile
    
    String arrayFile
    
    arrayLocatorClass
    
    Class arrayLocatorClass
    
    Deprecated.
    
    arrayName
    
    String arrayName
    
    arrayShape
    
    int arrayShape
    
    Array shape - point, line, plane, etc.
    
    hydrophoneArray
    
    ArrayList<Hydrophone> hydrophoneArray
    
    hydrophoneInterpolation
    
    int hydrophoneInterpolation
    
    instrumentId
    
    String instrumentId
    
    Array Id. Can be anything. Compulsory for Tethys.
    
    instrumentType
    
    String instrumentType
    
    Type, used for Tethys and other meta data control
    
    masterLocator
    
    MasterLocator masterLocator
    
    originInterpolation
    
    int originInterpolation
    
    speedOfSound
    
    double speedOfSound
    
    speedOfSoundError
    
    double speedOfSoundError
    
    streamers
    
    ArrayList<Streamer> streamers
- Class Array.Preamplifier
  
  class Preamplifier extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bandwidth
    
    double[] bandwidth
    
    gain
    
    double gain
- Class Array.SimpleHydrophoneLocator
  
  class SimpleHydrophoneLocator extends HydrophoneLocator implements Serializable
  
  serialVersionUID:
  
  -8197030971819764600L
- Class Array.StraightHydrophoneLocator
  
  class StraightHydrophoneLocator extends MovingHydrophoneLocator implements Serializable
  
  serialVersionUID:
  
  7673685461759252089L
  - Serialized Fields
    
    hydrophoneDataBlock
    
    PamDataBlock hydrophoneDataBlock
    
    lastFoundUnit
    
    GpsDataUnit lastFoundUnit
    
    lastGpsUnit
    
    GpsDataUnit lastGpsUnit
    
    lastSearchTime
    
    long lastSearchTime
    
    locatorSettings
    
    EmptyLocatorSettings locatorSettings
- Class Array.Streamer
  
  class Streamer extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    allLocatorSettings
    
    ArrayList<LocatorSettings> allLocatorSettings
    
    allOriginSettings
    
    ArrayList<OriginSettings> allOriginSettings
    
    coordinate
    
    double[] coordinate
    
    Streamer coordinates.
    
    coordinateError
    
    double[] coordinateError
    
    Errors on streamer location in x,y,z
    
    heading
    
    Double heading
    
    Euler angles in degrees.
    
    locatorClass
    
    Class locatorClass
    
    orientationTypes
    
    ArrayParameterType[] orientationTypes
    
    originClass
    
    Class originClass
    
    pamArray
    
    PamArray pamArray
    
    pitch
    
    Double pitch
    
    Euler angles in degrees.
    
    roll
    
    Double roll
    
    Euler angles in degrees.
    
    sensorDataBlocks
    
    String[] sensorDataBlocks
    
    streamerIndex
    
    int streamerIndex
    
    streamerName
    
    String streamerName
    
    Identifier to use with PAMbuoy.
- Class Array.StreamerDialog
  
  class StreamerDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    constructed
    
    boolean constructed
    
    currentArray
    
    PamArray currentArray
    
    currentOriginComponent
    
    JComponent currentOriginComponent
    
    currentOriginMethod
    
    HydrophoneOriginMethod currentOriginMethod
    
    defaultStreamer
    
    Streamer defaultStreamer
    
    dx
    
    JTextField dx
    
    dy
    
    JTextField dy
    
    dz
    
    JTextField dz
    
    heading
    
    JTextField heading
    
    interpolationPanel
    
    InterpolationDialogPanel interpolationPanel
    
    localiserMethod
    
    JComboBox<HydrophoneLocatorSystem> localiserMethod
    
    locateRecieverBorder
    
    TitledBorder locateRecieverBorder
    
    mainPanel
    
    JPanel mainPanel
    
    originMethod
    
    JComboBox<HydrophoneOriginSystem> originMethod
    
    originPanel
    
    JPanel originPanel
    
    pitch
    
    JTextField pitch
    
    roll
    
    JTextField roll
    
    sensorComponents
    
    SensorSourceComponent[] sensorComponents
    
    streamerHeightLabel
    
    JLabel streamerHeightLabel
    
    streamerName
    
    JTextField streamerName
    
    x
    
    JTextField x
    
    y
    
    JTextField y
    
    z
    
    JTextField z
- Class Array.ThreadingHydrophoneLocator
  
  class ThreadingHydrophoneLocator extends StraightHydrophoneLocator implements Serializable
  
  serialVersionUID:
  
  3244112516372812481L
  - Serialized Fields
    
    headingSynchObject
    
    Object headingSynchObject
    
    storedHeading
    
    double storedHeading
    
    storedHeadingPhone
    
    int storedHeadingPhone
    
    storedHeadingTime
    
    long storedHeadingTime
Package Array.importHydrophoneData
- Class Array.importHydrophoneData.StreamerImportParams
  
  class StreamerImportParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    hydropheonLocator
    
    HydrophoneLocatorSystem hydropheonLocator
    
    How to work out where hydrophones are in relation to the streamer,
    
    hydropheonOrigin
    
    HydrophoneOriginSystem hydropheonOrigin
    
    How to work out where the streamer is
    
    streamerIndex
    
    int streamerIndex
    
    StreamerIndex
- Class Array.importHydrophoneData.StreamerOriginDialog
  
  class StreamerOriginDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    hydrophoneLocatorMethods
    
    JComboBox<String> hydrophoneLocatorMethods
    
    params
    
    StreamerImportParams params
    
    streamerID
    
    JComboBox<Integer> streamerID
    
    streamerOriginMethods
    
    JComboBox<String> streamerOriginMethods
Package Array.sensors
- Class Array.sensors.ArrayDisplayParameters
  
  class ArrayDisplayParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    headRange
    
    int headRange
    
    pitchRange
    
    double[] pitchRange
    
    pitchRollImageFile
    
    String pitchRollImageFile
    
    pitchStep
    
    double pitchStep
Package Array.sensors.swing
- Class Array.sensors.swing.ArrayDimComponent
  
  class ArrayDimComponent extends PamPanel implements Serializable
  - Serialized Fields
    
    isViewer
    
    boolean isViewer
    
    minHeight
    
    Integer minHeight
    
    minWidth
    
    Integer minWidth
    
    sensorData
    
    ArraySensorDataUnit[] sensorData
    
    streamerMap
    
    int streamerMap
- Class Array.sensors.swing.ArrayDisplayParamsDialog
  
  class ArrayDisplayParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    currentParams
    
    ArrayDisplayParameters currentParams
    
    heading
    
    HeadingDialogPanel heading
    
    pitchRoll
    
    PitchRollDialogPanel pitchRoll
- Class Array.sensors.swing.DepthComponent
  
  class DepthComponent extends ArrayDimComponent implements Serializable
  - Serialized Fields
    
    paramsProvider
    
    ArrayDisplayParamsProvider paramsProvider
    
    rTriangle
    
    PamSymbol rTriangle
    
    stepSize
    
    double stepSize
- Class Array.sensors.swing.HeadingComponent
  
  class HeadingComponent extends ArrayDimComponent implements Serializable
  - Serialized Fields
    
    paramsProvider
    
    ArrayDisplayParamsProvider paramsProvider
    
    upTriangle
    
    PamSymbol upTriangle
- Class Array.sensors.swing.HeadPitchRollComponent
  
  class HeadPitchRollComponent extends ArrayDimComponent implements Serializable
  - Serialized Fields
    
    depthComponent
    
    DepthComponent depthComponent
    
    headComponent
    
    HeadingComponent headComponent
    
    paramsProvider
    
    ArrayDisplayParamsProvider paramsProvider
    
    prComponent
    
    PitchRollComponent prComponent
- Class Array.sensors.swing.PitchRollComponent
  
  class PitchRollComponent extends ArrayDimComponent implements Serializable
  - Serialized Fields
    
    circle
    
    PamSymbol circle
    
    funnyImage
    
    BufferedImage funnyImage
    
    lTriangle
    
    PamSymbol lTriangle
    
    paramsProvider
    
    ArrayDisplayParamsProvider paramsProvider
- Class Array.sensors.swing.SensorDisplayParameters
  
  class SensorDisplayParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    arrayDisplayParams
    
    ArrayDisplayParameters arrayDisplayParams
    
    dataSource
    
    String dataSource
Package Array.streamerOrigin
- Class Array.streamerOrigin.GPSOriginSettings
  
  class GPSOriginSettings extends OriginSettings implements Serializable
- Class Array.streamerOrigin.OriginSettings
  
  class OriginSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    originMethodClass
    
    Class originMethodClass
- Class Array.streamerOrigin.StaticOriginSettings
  
  class StaticOriginSettings extends OriginSettings implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    staticGpsData
    
    GpsData staticGpsData
Package ArrayAccelerometer
- Class ArrayAccelerometer.ArrayAccelDialog
  
  class ArrayAccelDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    accelControl
    
    ArrayAccelControl accelControl
    
    accelParams
    
    ArrayAccelParams accelParams
    
    dimChannel
    
    JTextField[] dimChannel
    
    mccPanel
    
    MccPanel mccPanel
    
    pitchOffset
    
    JTextField pitchOffset
    
    readInterval
    
    JTextField readInterval
    
    rollOffset
    
    JTextField rollOffset
    
    setZeroButton
    
    JButton setZeroButton
    
    voltsPerG
    
    JTextField[] voltsPerG
    
    zeroVolts
    
    JTextField[] zeroVolts
- Class ArrayAccelerometer.ArrayAccelParams
  
  class ArrayAccelParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    boardNumber
    
    int boardNumber
    
    Really the board index - need to handle this in the code.
    
    boardRange
    
    int boardRange
    
    dimChannel
    
    int[] dimChannel
    
    pitchOffset
    
    double pitchOffset
    
    Tilt offset is added to the measured roll.
    
    readInterval
    
    double readInterval
    
    rollOffset
    
    double rollOffset
    
    Roll offset is added to the measured roll
    
    streamerIndex
    
    int streamerIndex
    
    voltsPerG
    
    double[] voltsPerG
    
    zeroVolts
    
    double[] zeroVolts
Package Azigram
- Class Azigram.AzigramDisplayDialog
  
  class AzigramDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    azigramControl
    
    AzigramControl azigramControl
    
    azigramParameters
    
    AzigramParameters azigramParameters
    
    outputRates
    
    Float[] outputRates
    
    resolutionPanel
    
    ResolutionPanel resolutionPanel
    
    sampleRateCombo
    
    JComboBox<Float> sampleRateCombo
    
    sourcePanel
    
    GroupedSourcePanel sourcePanel
- Class Azigram.AzigramParameters
  
  class AzigramParameters extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    bearingCorrection
    
    double[] bearingCorrection
    
    Bearing bias/correction (degrees?) (parameter from Thode Azigram)
    
    channelBitmap
    
    int channelBitmap
    
    dataSource
    
    GroupedSourceParameters dataSource
    
    displayGaindB
    
    float displayGaindB
    
    Apply gain (in dB) when displaying on the spectrogram. This is a hack to help the Azigram look nicer. It allows the user some discretion to adjust how Azigram transparency/fade-to-black works.
    
    name
    
    String name
    
    outputSampleRate
    
    float outputSampleRate
    
    secAvg
    
    double secAvg
    
    Seconds to average PSD for long-term display or 0 for no averaging (parameter from Thode Azigram)
Package backupmanager
- Class backupmanager.BackupParams
  
  class BackupParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    scheduleState
    
    ScheduleState scheduleState
    
    scheduleType
    
    String scheduleType
- Class backupmanager.FileLocation
  
  class FileLocation extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    canEditMask
    
    boolean canEditMask
    
    canEditPath
    
    boolean canEditPath
    
    mask
    
    String mask
    
    path
    
    String path
- Class backupmanager.FileLocationParams
  
  class FileLocationParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    destLocation
    
    FileLocation destLocation
    
    sourceLocation
    
    FileLocation sourceLocation
Package backupmanager.action
- Exception Class backupmanager.action.BackupException
  
  class BackupException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
- Class backupmanager.action.CopySettings
  
  class CopySettings extends ActionSettings implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    destLocation
    
    FileLocation destLocation
Package backupmanager.bespoke
- Class backupmanager.bespoke.BespokeIdentity
  
  class BespokeIdentity extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    name
    
    String name
- Class backupmanager.bespoke.BespokeNameDialog
  
  class BespokeNameDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    bespokeBackups
    
    BespokeBackups bespokeBackups
    
    name
    
    JTextField name
    
    streamName
    
    String streamName
- Class backupmanager.bespoke.BespokeSettings
  
  class BespokeSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    identities
    
    ArrayList<BespokeIdentity> identities
Package backupmanager.filter
Package backupmanager.filter.alarm
- Class backupmanager.filter.alarm.AlarmFilterParams
  
  class AlarmFilterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    alarmParameters
    
    HashMap<String,AlarmParamSet> alarmParameters
    
    passEverything
    
    boolean passEverything
- Class backupmanager.filter.alarm.AlarmParamSet
  
  class AlarmParamSet extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    postPeriod
    
    long postPeriod
    
    Period after the alarm that's to be kept (millis)
    
    prePeriod
    
    long prePeriod
    
    Period before the alarm that's to be kept (millis)
    
    useAlarm
    
    boolean useAlarm
    
    fire data actions on this alarm
Package backupmanager.settings
- Class backupmanager.settings.ActionSettings
  
  class ActionSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    backupFilterParams
    
    BackupFilterParams backupFilterParams
    
    Parameters for a backup filter
    
    className
    
    String className
    
    Store the name as a string, sinc the class is not serializable.
    
    lastBackupDuration
    
    long lastBackupDuration
    
    How long the last backup took.
    
    lastBackupTime
    
    long lastBackupTime
    
    Time of the last backup in milliseconds
- Class backupmanager.settings.BackupSettings
  
  class BackupSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    actionSettings
    
    ArrayList<ActionSettings> actionSettings
- Class backupmanager.settings.FileBackupSettings
  
  class FileBackupSettings extends BackupSettings implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    sourceLocation
    
    FileLocation sourceLocation
Package backupmanager.swing
- Class backupmanager.swing.ActionDialog
  
  class ActionDialog extends PamDialog implements Serializable
- Class backupmanager.swing.FileBackupDialog
  
  class FileBackupDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    destination
    
    FileLocationComponent destination
    
    flParams
    
    FileLocationParams flParams
    
    source
    
    FileLocationComponent source
- Class backupmanager.swing.GenericBackupDialog
  
  class GenericBackupDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    mainPanel
    
    JPanel mainPanel
    
    ok
    
    boolean ok
    
    panels
    
    ArrayList<PamDialogPanel> panels
Package beamformer
- Class beamformer.BeamAlgorithmParams
  
  class BeamAlgorithmParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algorithmName
    
    String algorithmName
    
    The name of the algorithm using these parameters. This should be the name returned by the getStaticProperties().getName() call to the algorithm provider object, in order to properly match up provider to parameters in BeamformerProcess.
    
    beamOGramAngles
    
    int[] beamOGramAngles
    
    A 3 element vector with the minimum azimuth angle (index 0), maximum azimuth angle (index 1), and step size (index 2) to use for the BeamOGram sweep. Initialises to 0deg to 180deg, with a 2 degree step. Note that the term azimuth is used for familiarity, and is appropriate for horizontal linear arrays. A more generic term would be main angle, in the direction of the primary array axis
    
    beamOGramFreqRange
    
    double[] beamOGramFreqRange
    
    A 2D array containing the frequency range to analyse. The array is of length 2 with index 0 = min freq and index 1 = max freq. If this array is null, it will default to the full frequency range available from the fft source.
    
    beamOGramSlants
    
    int[] beamOGramSlants
    
    A 3 element vector with the minimum slant angle (index 0), maximum slant angle (index 1), and step size (index 2) to use for the BeamOGram sweep. For a horizontal linear array, 0 deg is horizontal and -90 deg is straight down. Initialises to zero slant (0 deg x 0 deg x 1 deg step - step size cannot be 0 or else it will cause div-by-0 error later). Note that the term slant is used for familiarity, and is appropriate for horizontal linear arrays. A more generic term would be secondary angle, relative to the perpendicular to the array axis primary array axis.
    
    canBeam
    
    boolean canBeam
    
    whether or not this instance of the algorithm can/should allow the user to create individual beams. Defaults to true.
    
    canBeamogram
    
    boolean canBeamogram
    
    whether or not this instance of the algorithm can/should allow the user to create a beamogram. Defaults to true.
    
    channelMap
    
    int channelMap
    
    Channel map describing the channels (hydrophones) used in this group
    
    freqRange
    
    double[][] freqRange
    
    A 2D array containing the frequency range to analyse. The second array is of length 2 with index 0 = min freq and index 1 = max freq. The first array will have one index for each of the beams (i.e. [numBeams]). If this array is null, it will default to the full frequency range available from the fft source.
    
    groupNumber
    
    int groupNumber
    
    The group number these parameters are linked to
    
    headings
    
    int[] headings
    
    an array containing the beam headings, in degrees, where 0 = straight ahead and 180 = behind. The length of the array is numBeams. The term headings (aka azimuth) is used to make the variable easily recognisable for the most common type of hydrophones array, the linear horizontal array. A more generic term for this variable would be main angle, in the direction of the primary array axis
    
    numBeamogram
    
    int numBeamogram
    
    integer indicating the number of beamograms to create. Valid values are 0 (for no beamograms) or 1. Defaults to 0.
    
    numBeams
    
    int numBeams
    
    integer indicating how many individual beams are to be created. Defaults to 0.
    
    slants
    
    int[] slants
    
    an array containing the beam slant angles, in degrees, where 0 is horizontal and -90 = straight down. The length of the array is numBeams. The term slant angle is used to make the variable easily recognisable for the most common type of hydrophones array, the linear horizontal array. A more generic term for this variable would be secondary angle, relative to the perpendicular to the array axis primary array axis
- Class beamformer.BeamFormerParams
  
  class BeamFormerParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algorithmParamsTable
    
    HashMap<String,BeamAlgorithmParams> algorithmParamsTable
    
    A Hashtable linking the algorithm name to the parameters object, so that we can pull up the algorithm-specific settings window. The key can take two forms: groupNum_groupChannelMap, to determine the last algorithm the user selected for that particular group number and group channel map, and algorithmName_groupNum_groupChannelMap to return the parameters for a specific group number, group channel map and algorithm.
    
    currentGroupAlgorithms
    
    ArrayList<String> currentGroupAlgorithms
    
    list of current algorithms used by each group. needed in order to get rid of the muddle over getting algorithm parameters with or without a name out of the algo parameters hash table.
    
    groupedSourceParameters
    
    GroupedSourceParameters groupedSourceParameters
Package beamformer.algorithms.basicFreqDomain
- Class beamformer.algorithms.basicFreqDomain.BasicFreqDomParams
  
  class BasicFreqDomParams extends BeamAlgorithmParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    beamogramWeights
    
    double[] beamogramWeights
    
    2D array containing weights. The array is of length numElements, and holds weight values for each of the elements in the channelMap.
    
    weights
    
    double[][] weights
    
    2D array containing weights. The second array is of length numElements, and holds weight values for each of the elements in the channelMap. The first array will have one index for each of the beams to generate.
    
    windowTypes
    
    int[] windowTypes
    
    Array containing the type of window used for each set of beam weights. Numbers match the WindowFunction list, with an extra index value added at the end to indicate a custom list. Length of array is numBeams. NOTE: EXTRA VALUE NOT IMPLEMENTED YET. Will probably have to subclass the WindowFunction class to add an extra 'Custom' name at the end, and then figure out how to put it into the GUI. Not important enough right now, will leave this for v2
Package beamformer.algorithms.mvdr
- Class beamformer.algorithms.mvdr.MVDRParams
  
  class MVDRParams extends BeamAlgorithmParams implements Serializable
  
  serialVersionUID:
  
  1L
Package beamformer.algorithms.nullalgo
- Class beamformer.algorithms.nullalgo.NullBeamParams
  
  class NullBeamParams extends BeamAlgorithmParams implements Serializable
  
  serialVersionUID:
  
  1L
Package beamformer.localiser
- Class beamformer.localiser.BFLocaliserParams
  
  class BFLocaliserParams extends BeamFormerParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    detectionSource
    
    String detectionSource
    
    doAllGroups
    
    boolean doAllGroups
    
    Say to make additional data units and beam form ALL channel groups.
    
    fftHop
    
    int fftHop
    
    fftLength
    
    int fftLength
Package beamformer.plot
- Class beamformer.plot.BeamOGramPlotParams
  
  class BeamOGramPlotParams extends PlotParams2D implements Serializable
  - Serialized Fields
    
    angleLimits
    
    double[] angleLimits
Package bearinglocaliser
- Class bearinglocaliser.BearingLocaliserParams
  
  class BearingLocaliserParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algorithmParamsTable
    
    HashMap<String,BearingAlgorithmParams> algorithmParamsTable
    
    currentAlgorithmNames
    
    ArrayList<String> currentAlgorithmNames
    
    detectionSource
    
    String detectionSource
    
    doAllGroups
    
    boolean doAllGroups
    
    Say to make additional data units and beam form ALL channel groups.
    
    fftHop
    
    int fftHop
    
    fftLength
    
    int fftLength
    
    rawOrFFTSourceParameters
    
    GroupedSourceParameters rawOrFFTSourceParameters
Package bearinglocaliser.algorithms
- Class bearinglocaliser.algorithms.BearingAlgorithmParams
  
  class BearingAlgorithmParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    Channel map describing the channels (hydrophones) used in this group
    
    groupNumber
    
    int groupNumber
    
    The group number these parameters are linked to
Package bearinglocaliser.beamformer
- Class bearinglocaliser.beamformer.WrappedBeamFormParams
  
  class WrappedBeamFormParams extends BearingAlgorithmParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    beamAlgorithmParams
    
    BeamAlgorithmParams beamAlgorithmParams
Package bearinglocaliser.toad
- Class bearinglocaliser.toad.TOADBearingParams
  
  class TOADBearingParams extends BearingAlgorithmParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bearingHeadings
    
    int[] bearingHeadings
    
    A 3 element vector with the minimum azimuth angle (index 0), maximum azimuth angle (index 1), and step size (index 2) to use for the bearing sweep. Initialises to 0deg to 180deg, with a 2 degree step. Note that the term azimuth is used for familiarity, and is appropriate for horizontal linear arrays. A more generic term would be main angle, in the direction of the primary array axis
    
    bearingSlants
    
    int[] bearingSlants
    
    A 3 element vector with the minimum slant angle (index 0), maximum slant angle (index 1), and step size (index 2) to use for the bearing sweep. For a horizontal linear array, 0 deg is horizontal and -90 deg is straight down. Initialises to zero slant (0 deg x 0 deg x 1 deg step - step size cannot be 0 or else it will cause div-by-0 error later). Note that the term slant is used for familiarity, and is appropriate for horizontal linear arrays. A more generic term would be secondary angle, relative to the perpendicular to the array axis primary array axis.
Package binaryFileStorage
- Class binaryFileStorage.BinaryFooter
  
  class BinaryFooter extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analysisDate
    
    long analysisDate
    
    dataDate
    
    long dataDate
    
    fileEndReason
    
    int fileEndReason
    
    fileEndSample
    
    long fileEndSample
    
    fileLength
    
    long fileLength
    
    highestUID
    
    Long highestUID
    
    lowestUID
    
    Long lowestUID
    
    nObjects
    
    int nObjects
- Class binaryFileStorage.BinaryHeader
  
  class BinaryHeader extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analysisDate
    
    long analysisDate
    
    dataDate
    
    long dataDate
    
    extraInfo
    
    byte[] extraInfo
    
    fileStartSample
    
    long fileStartSample
    
    headerFormat
    
    int headerFormat
    
    headerLength
    
    int headerLength
    
    moduleName
    
    String moduleName
    
    moduleType
    
    String moduleType
    
    pamguard
    
    String pamguard
    
    pamguardBranch
    
    String pamguardBranch
    
    pamguardVersion
    
    String pamguardVersion
    
    streamName
    
    String streamName
- Class binaryFileStorage.BinaryMapMakingDialog
  
  class BinaryMapMakingDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    streamName
    
    JLabel streamName
    
    streamProgress
    
    JProgressBar streamProgress
- Class binaryFileStorage.BinaryOfflineDataMapPoint
  
  class BinaryOfflineDataMapPoint extends OfflineDataMapPoint implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    binaryFooter
    
    BinaryFooter binaryFooter
    
    binaryHeader
    
    BinaryHeader binaryHeader
    
    datagram
    
    Datagram datagram
    
    moduleFooter
    
    ModuleFooter moduleFooter
    
    moduleHeader
    
    ModuleHeader moduleHeader
    
    relativeURI
    
    URI relativeURI
- Class binaryFileStorage.BinaryStorageDialog
  
  class BinaryStorageDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    binaryStorageDialogPanel
    
    BinaryStorageDialogPanel binaryStorageDialogPanel
    
    binaryStore
    
    BinaryStore binaryStore
    
    binaryStoreSettings
    
    BinaryStoreSettings binaryStoreSettings
- Class binaryFileStorage.BinaryStoreSettings
  
  class BinaryStoreSettings extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    autoNewFiles
    
    boolean autoNewFiles
    
    channelShift
    
    int channelShift
    
    Channel shift parameter for secondary binary storage units. Will always be zero for the main binary store.
    
    datedSubFolders
    
    boolean datedSubFolders
    
    fileSeconds
    
    int fileSeconds
    
    lastZippedFileDate
    
    long lastZippedFileDate
    
    limitFileSize
    
    boolean limitFileSize
    
    maxFileSize
    
    int maxFileSize
    
    noiseStoreType
    
    NoiseStoreType noiseStoreType
    
    storeLocation
    
    String storeLocation
- Class binaryFileStorage.ModuleFooter
  
  class ModuleFooter extends Object implements Serializable
  
  serialVersionUID:
  
  1L
- Class binaryFileStorage.ModuleHeader
  
  class ModuleHeader extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    moduleVersion
    
    int moduleVersion
Package binaryFileStorage.backup
- Class binaryFileStorage.backup.BinaryBackupParams
  
  class BinaryBackupParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    destLocation
    
    FileLocation destLocation
Package cepstrum
- Class cepstrum.CepstrumDialog
  
  class CepstrumDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    cepstrumParams
    
    CepstrumParams cepstrumParams
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class cepstrum.CepstrumParams
  
  class CepstrumParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    sourceDataBlock
    
    String sourceDataBlock
Package classifier
- Class classifier.ClassifierParams
  
  class ClassifierParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    classifierClass
    
    Class classifierClass
- Class classifier.GroupMeans
  
  class GroupMeans extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    groupMeans
    
    Jama.Matrix groupMeans
    
    groupSize
    
    int[] groupSize
    
    uniqueGroups
    
    int[] uniqueGroups
- Class classifier.LinearClassifierParams
  
  class LinearClassifierParams extends ClassifierParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    groupMeans
    
    GroupMeans groupMeans
    
    logDetSigma
    
    double logDetSigma
    
    rMatrix
    
    Jama.Matrix rMatrix
- Class classifier.MahalanobisParams
  
  class MahalanobisParams extends ClassifierParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    groupMeans
    
    GroupMeans groupMeans
    
    logDetSigma
    
    double[] logDetSigma
    
    rInverse
    
    Jama.Matrix[] rInverse
- Class classifier.WekaClassifierParams
  
  class WekaClassifierParams extends ClassifierParams implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    classifier
    
    weka.classifiers.AbstractClassifier classifier
- Class classifier.WekaOptionsDialog
  
  class WekaOptionsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    abstractWekaClassifier
    
    AbstractWekaClassifier abstractWekaClassifier
    
    argumentCount
    
    int[] argumentCount
    
    checkBoxes
    
    JCheckBox[] checkBoxes
    
    paramFields
    
    JTextField[][] paramFields
    
    wekaClassifier
    
    weka.classifiers.AbstractClassifier wekaClassifier
Package clickDetector
- Class clickDetector.BasicClickIdParameters
  
  class BasicClickIdParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clickTypeParams
    
    ArrayList<ClickTypeParams> clickTypeParams
- Class clickDetector.BTDisplayParameters
  
  class BTDisplayParameters extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    amplitudeRange
    
    double[] amplitudeRange
    
    amplitudeSelect
    
    boolean amplitudeSelect
    
    angleRotation
    
    int angleRotation
    
    colourScheme
    
    int colourScheme
    
    displayChannels
    
    int displayChannels
    
    logICIScale
    
    boolean logICIScale
    
    maxClickHeight
    
    int maxClickHeight
    
    maxClickLength
    
    int maxClickLength
    
    maxICI
    
    double maxICI
    
    minClickHeight
    
    int minClickHeight
    
    minClickLength
    
    int minClickLength
    
    minICI
    
    double minICI
    
    nAmplitudeGridLines
    
    int nAmplitudeGridLines
    
    nBearingGridLines
    
    int nBearingGridLines
    
    nICIGridLines
    
    int nICIGridLines
    
    showKey
    
    boolean showKey
    
    showUnassignedICI
    
    boolean showUnassignedICI
    
    timeRange
    
    double timeRange
    
    trackedClickMarkers
    
    boolean trackedClickMarkers
    
    Show little markers for tracked click angles down the sides of the display
    
    view360
    
    boolean view360
    
    VScale
    
    int VScale
- Class clickDetector.ClickAlarm
  
  class ClickAlarm extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    fileIsLoaded
    
    boolean fileIsLoaded
    
    Boolean to indicate whether or not sound file has been loaded
    
    name
    
    String name
    
    Name of alarm
    
    useDefault
    
    boolean useDefault
    
    Boolean indicating whether or not the default sound file should be used
    
    userAlarmFile
    
    String userAlarmFile
    
    User-defined alarm sound.
- Class clickDetector.ClickBinaryModuleFooter
  
  class ClickBinaryModuleFooter extends ModuleFooter implements Serializable
  
  serialVersionUID:
  
  6993205718227319638L
  - Serialized Fields
    
    clickDetectorName
    
    String clickDetectorName
    
    speciesList
    
    String[] speciesList
    
    typesCount
    
    int[] typesCount
- Class clickDetector.ClickBinaryModuleHeader
  
  class ClickBinaryModuleHeader extends ModuleHeader implements Serializable
- Class clickDetector.ClickDisplayManagerParameters
  
  class ClickDisplayManagerParameters extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    initialised
    
    boolean initialised
    
    lastMode
    
    int lastMode
    
    nBTDisplays
    
    int nBTDisplays
    
    nConcatSpecDisplays
    
    int nConcatSpecDisplays
    
    nSpectrumDisplays
    
    int nSpectrumDisplays
    
    nTriggerDisplays
    
    int nTriggerDisplays
    
    nWaveDisplays
    
    int nWaveDisplays
    
    nWignerDisplays
    
    int nWignerDisplays
- Class clickDetector.ClickDisplayManagerParameters2
  
  class ClickDisplayManagerParameters2 extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    initialised
    
    boolean initialised
    
    lastMode
    
    int lastMode
    
    manualWindowSizes
    
    boolean manualWindowSizes
    
    nBTDisplays
    
    int[] nBTDisplays
    
    nConcatSpecDisplays
    
    int[] nConcatSpecDisplays
    
    nIDIHistogramDisplays
    
    int[] nIDIHistogramDisplays
    
    nSpectrumDisplays
    
    int[] nSpectrumDisplays
    
    nTriggerDisplays
    
    int[] nTriggerDisplays
    
    nWaveDisplays
    
    int[] nWaveDisplays
    
    nWignerDisplays
    
    int[] nWignerDisplays
    
    windowSizes
    
    ArrayList<clickDetector.ClickDisplayManagerParameters2.WindowSizeData> windowSizes
- Class clickDetector.ClickParameters
  
  class ClickParameters extends Object implements Serializable
  
  serialVersionUID:
  
  8L
  - Serialized Fields
    
    backgroundIntervalMillis
    
    int backgroundIntervalMillis
    
    Interval for storing background measurements.
    
    channelBitmap
    
    int channelBitmap
    
    Deprecated.
    
    channelGroups
    
    int[] channelGroups
    
    Deprecated.
    
    classifyOnline
    
    boolean classifyOnline
    
    Run classification in real time / online ops.
    
    clickAlarmList
    
    ArrayList<ClickAlarm> clickAlarmList
    
    clickClassifierType
    
    int clickClassifierType
    
    The type of classifier to use - CLASSIFY_SWEEP is the default.
    
    clickLocParams
    
    ClickLocParams clickLocParams
    
    Click localiser paramaters.
    
    createRCFile
    
    boolean createRCFile
    
    dbThreshold
    
    double dbThreshold
    
    defaultRange
    
    double defaultRange
    
    Deprecated.
    
    delayMeasurementParams
    
    DelayMeasurementParams delayMeasurementParams
    
    delayMeasurementTypeParams
    
    Hashtable<Integer,DelayMeasurementParams> delayMeasurementTypeParams
    
    discardEchoes
    
    boolean discardEchoes
    
    discardUnclassifiedClicks
    
    boolean discardUnclassifiedClicks
    
    groupedSourceParameters
    
    GroupedSourceParameters groupedSourceParameters
    
    groupingType
    
    int groupingType
    
    Deprecated.
    
    longFilter
    
    double longFilter
    
    longFilter2
    
    double longFilter2
    
    maxLength
    
    int maxLength
    
    minBearingSeparation
    
    double minBearingSeparation
    
    Deprecated.
    
    minSep
    
    int minSep
    
    minTimeSeparation
    
    double minTimeSeparation
    
    Deprecated.
    
    minTriggerChannels
    
    int minTriggerChannels
    
    Min number of channels that have to be triggered for a click to be read.
    
    noiseSampleInterval
    
    double noiseSampleInterval
    
    overlayMarkDataSelectorParams
    
    MarkDataSelectorParams overlayMarkDataSelectorParams
    
    plotIndividualBearings
    
    boolean plotIndividualBearings
    
    Deprecated.
    
    postSample
    
    int postSample
    
    preFilter
    
    FilterParams preFilter
    
    preSample
    
    int preSample
    
    publishTriggerFunction
    
    boolean publishTriggerFunction
    
    Make the trigger function output data available as raw data so it can be viewed.
    
    radarColour
    
    int radarColour
    
    How to colour clicks on radar displays (this will apply to all radars - not possible to do them individually at the moment).
    
    rawDataSource
    
    String rawDataSource
    
    Deprecated.
    
    rcAutoNewFile
    
    boolean rcAutoNewFile
    
    rcFileLength
    
    float rcFileLength
    
    runEchoOnline
    
    boolean runEchoOnline
    
    sampleNoise
    
    boolean sampleNoise
    
    shortFilter
    
    double shortFilter
    
    showShortTrains
    
    int showShortTrains
    
    Deprecated.
    
    singleWavePlot
    
    boolean singleWavePlot
    
    Single plot of waveforms on top of each other - rather than one per channel
    
    spectrogramColour
    
    int spectrogramColour
    
    How to colour clicks on spectrogram displays (this will apply to all radars - not possible to do them individually at the moment).
    
    storageDirectory
    
    String storageDirectory
    
    storageInitials
    
    String storageInitials
    
    storeBackground
    
    boolean storeBackground
    
    Store trigger background in binary stores
    
    triggerBitmap
    
    int triggerBitmap
    
    triggerFilter
    
    FilterParams triggerFilter
    
    viewFilteredWaveform
    
    boolean viewFilteredWaveform
    
    view a filtered waveform in the display
    
    waveFixedXScale
    
    boolean waveFixedXScale
    
    Stop auto scaling the x axis - fix it at the max click length.
    
    waveformFilterParams
    
    FFTFilterParams waveformFilterParams
    
    Parameters for waveform filter.
    
    waveShowEnvelope
    
    boolean waveShowEnvelope
    
    Show the envelope waveform
- Class clickDetector.ClickRecorderTriggerData
  
  class ClickRecorderTriggerData extends RecorderTriggerData implements Serializable
  
  serialVersionUID:
  
  1L
- Class clickDetector.ClickSidePanel.SidePanel
  
  class SidePanel extends PamBorderPanel implements Serializable
- Class clickDetector.ClickSpectrumDialog
  
  class ClickSpectrumDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    channelChoice
    
    JComboBox channelChoice
    
    clickSpectrum
    
    ClickSpectrum clickSpectrum
    
    clickSpectrumParams
    
    ClickSpectrumParams clickSpectrumParams
    
    isViewer
    
    boolean isViewer
    
    logRange
    
    JTextField logRange
    
    logScale
    
    JCheckBox logScale
    
    plotCepstrum
    
    JRadioButton plotCepstrum
    
    plotSpectrogram
    
    JRadioButton plotSpectrogram
    
    showEventInfo
    
    JCheckBox showEventInfo
    
    smoothBins
    
    JTextField smoothBins
    
    smoothData
    
    JCheckBox smoothData
- Class clickDetector.ClickSpectrumParams
  
  class ClickSpectrumParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelChoice
    
    int channelChoice
    
    logRange
    
    double logRange
    
    logScale
    
    boolean logScale
    
    plotCepstrum
    
    boolean plotCepstrum
    
    plotSmoothing
    
    int plotSmoothing
    
    showEventInfo
    
    boolean showEventInfo
    
    smoothPlot
    
    boolean smoothPlot
- Class clickDetector.ClickSpectrumTemplateDialog
  
  class ClickSpectrumTemplateDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    browseButton
    
    JButton browseButton
    
    clickSpectrumTemplateParams
    
    ClickSpectrumTemplateParams clickSpectrumTemplateParams
    
    clickTemplate
    
    ClickTemplate clickTemplate
    
    clickTemplateFile
    
    File clickTemplateFile
    
    createButton
    
    JButton createButton
    
    parentFrame
    
    Window parentFrame
    
    previousFiles
    
    ArrayList<String> previousFiles
    
    templateFileLocation
    
    SelectFolder templateFileLocation
    
    templateList
    
    JComboBox templateList
- Class clickDetector.ClickSpectrumTemplateEditDialog
  
  class ClickSpectrumTemplateEditDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    addTo
    
    JButton addTo
    
    averageFFT
    
    double[] averageFFT
    
    averageFFTLog
    
    double[] averageFFTLog
    
    channel
    
    Integer channel
    
    clearAll
    
    JButton clearAll
    
    clickControl
    
    ClickControl clickControl
    
    clickSpectrum
    
    ClickSpectrum clickSpectrum
    
    clickSpectrumTemplateParams
    
    ClickSpectrumTemplateParams clickSpectrumTemplateParams
    
    colour
    
    JButton colour
    
    confidenceIntervals
    
    JCheckBoxMenuItem confidenceIntervals
    
    confidenceIntervalsb
    
    Boolean confidenceIntervalsb
    
    fftColour
    
    Color fftColour
    
    load
    
    JButton load
    
    logMaximum
    
    double logMaximum
    
    logMinimum
    
    double logMinimum
    
    logScale
    
    JCheckBoxMenuItem logScale
    
    logScaleb
    
    Boolean logScaleb
    
    mainPanel
    
    JSplitPane mainPanel
    
    N
    
    int N
    
    offlineEventListPanel
    
    OfflineEventListPanel offlineEventListPanel
    
    parentFrame
    
    Window parentFrame
    
    sampleRate
    
    float sampleRate
    
    save
    
    JButton save
    
    selectedEvents
    
    ArrayList<OfflineEventDataUnit> selectedEvents
    
    species
    
    String species
    
    spectrumPlot
    
    clickDetector.ClickSpectrumTemplateEditDialog.SpectrumPlotPanel spectrumPlot
    
    stdFFT
    
    double[] stdFFT
    
    stdFFTLog
    
    double[] stdFFTLog
    
    tabbedPane
    
    JTabbedPane tabbedPane
    
    templateTable
    
    clickDetector.ClickSpectrumTemplateEditDialog.TemplateTable templateTable
- Class clickDetector.ClickSpectrumTemplateEditDialog.TemplateTable.CustomTableCellRenderer
  
  class CustomTableCellRenderer extends DefaultTableCellRenderer implements Serializable
  
  serialVersionUID:
  
  1L
- Class clickDetector.ClickSpectrumTemplateParams
  
  class ClickSpectrumTemplateParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clickTemplateArray
    
    ArrayList<ClickTemplate> clickTemplateArray
    
    clickTempVisible
    
    ArrayList<Boolean> clickTempVisible
    
    previousFiles
    
    ArrayList<String> previousFiles
    
    templateFile
    
    File templateFile
- Class clickDetector.ClickTabPanel
  
  class ClickTabPanel extends JDesktopPane implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    clickTabPanelControl
    
    ClickTabPanelControl clickTabPanelControl
    
    firstMaximise
    
    boolean firstMaximise
    
    resizeCount
    
    int resizeCount
    
    sampleRate
    
    float sampleRate
- Class clickDetector.ClickTypeParams
  
  class ClickTypeParams extends ClickTypeCommonParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    band1Energy
    
    double[] band1Energy
    
    band1Freq
    
    double[] band1Freq
    
    band2Energy
    
    double[] band2Energy
    
    band2Freq
    
    double[] band2Freq
    
    bandEnergyDifference
    
    double bandEnergyDifference
    
    clickLength
    
    double[] clickLength
    
    lengthEnergyFraction
    
    double lengthEnergyFraction
    
    meanSelRange
    
    double[] meanSelRange
    
    meanSumRange
    
    double[] meanSumRange
    
    peakFrequencyRange
    
    double[] peakFrequencyRange
    
    peakFrequencySearch
    
    double[] peakFrequencySearch
    
    peakWidth
    
    double[] peakWidth
    
    symbol
    
    PamSymbol symbol
    
    whichSelections
    
    int whichSelections
    
    widthEnergyFraction
    
    double widthEnergyFraction
- Class clickDetector.ConcatenatedSpectParams
  
  class ConcatenatedSpectParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    colourMap
    
    ColourArray.ColourArrayType colourMap
    
    logVal
    
    boolean logVal
    
    maxLogValS
    
    double maxLogValS
    
    normaliseAll
    
    boolean normaliseAll
- Class clickDetector.ConcatenatedSpectrogramdialog
  
  class ConcatenatedSpectrogramdialog extends PamDialog implements Serializable
  - Serialized Fields
    
    colourList
    
    JComboBox colourList
    
    concatenatedSpectParams
    
    ConcatenatedSpectParams concatenatedSpectParams
    
    logRange
    
    JTextField logRange
    
    logScale
    
    JCheckBox logScale
    
    mainPanel
    
    JPanel mainPanel
    
    normalise
    
    JCheckBox normalise
- Class clickDetector.IDI_DisplayDialog
  
  class IDI_DisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    highResIdiBinScale
    
    JTextField highResIdiBinScale
    
    Scale of Inter-Detection-Interval (IDI) bins in the high-resolution display, in milliseconds
    
    idiDisplay
    
    IDI_Display idiDisplay
    
    idiParams
    
    IDI_DisplayParams idiParams
    
    lowResIdiBinScale
    
    JTextField lowResIdiBinScale
    
    Scale of Inter-Detection-Interval (IDI) bins in the low-resolution display, in milliseconds
    
    maxHighCount
    
    JTextField maxHighCount
    
    highest histogram count in the high-resolution colour bar
    
    maxHighResBin
    
    JTextField maxHighResBin
    
    maximum IDI bin value in high-resolution display, in milliseconds
    
    maxLowCount
    
    JTextField maxLowCount
    
    highest histogram count in the low-resolution colour bar
    
    maxLowResBin
    
    JTextField maxLowResBin
    
    maximum IDI bin value in low-resolution display, in milliseconds
    
    maxTimeBin
    
    JTextField maxTimeBin
    
    maximum time bin value, in milliseconds
    
    outputButton
    
    JCheckBox outputButton
    
    checkbox to select output file
    
    outputDirectoryButton
    
    JButton outputDirectoryButton
    
    Jbutton for selecting output file
    
    outputDirTxt
    
    JTextField outputDirTxt
    
    textbox displaying the output filename, including path
    
    timeBinScale
    
    JTextField timeBinScale
    
    Size of time bins, in milliseconds
- Class clickDetector.IDI_DisplayParams
  
  class IDI_DisplayParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    highResIdiBinScale
    
    int highResIdiBinScale
    
    Scale of Inter-Detection-Interval (IDI) bins in the high-resolution display, in milliseconds
    
    lowResIdiBinScale
    
    int lowResIdiBinScale
    
    Scale of Inter-Detection-Interval (IDI) bins in the low-resolution display, in milliseconds
    
    maxHighCount
    
    int maxHighCount
    
    highest histogram count in the high-resolution colour bar
    
    maxHighResBin
    
    int maxHighResBin
    
    maximum IDI bin value in high-resolution display, in milliseconds
    
    maxLowCount
    
    int maxLowCount
    
    highest histogram count in the low-resolution colour bar
    
    maxLowResBin
    
    int maxLowResBin
    
    maximum IDI bin value in low-resolution display, in milliseconds
    
    maxTimeBin
    
    int maxTimeBin
    
    maximum time bin value, in milliseconds (default 5 minutes)
    
    outputFilename
    
    File outputFilename
    
    output filename
    
    saveOutput
    
    boolean saveOutput
    
    boolean indicating whether or not we're saving the data
    
    timeBinScale
    
    int timeBinScale
    
    Size of time bins, in milliseconds (default 20 seconds)
- Class clickDetector.WignerPlotdialog
  
  class WignerPlotdialog extends PamDialog implements Serializable
  - Serialized Fields
    
    fftLengthData
    
    JTextField fftLengthData
    
    fftLengthModel
    
    FFTLengthModel fftLengthModel
    
    fftLengthSpinner
    
    JSpinner fftLengthSpinner
    
    limitLength
    
    JCheckBox limitLength
    
    wignerPlotOptions
    
    WignerPlotOptions wignerPlotOptions
- Class clickDetector.WignerPlotOptions
  
  class WignerPlotOptions extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    limitLength
    
    boolean limitLength
    
    manualLength
    
    int manualLength
Package clickDetector.alarm
- Class clickDetector.alarm.ClickAlarmDialog
  
  class ClickAlarmDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickAlarmParameters
    
    ClickAlarmParameters clickAlarmParameters
    
    clickControl
    
    ClickControl clickControl
    
    speciesPanel
    
    clickDetector.alarm.ClickAlarmDialog.SpeciesPanel speciesPanel
- Class clickDetector.alarm.ClickAlarmParameters
  
  class ClickAlarmParameters extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clicksOREvents
    
    boolean clicksOREvents
    
    eventTypes
    
    Hashtable<String,Boolean> eventTypes
    
    minICIMillis
    
    int minICIMillis
    
    minimumAmplitude
    
    double minimumAmplitude
    
    onlineAutoEvents
    
    boolean onlineAutoEvents
    
    onlineManualEvents
    
    boolean onlineManualEvents
    
    scoreByAmplitude
    
    boolean scoreByAmplitude
    
    speciesWeightings
    
    double[] speciesWeightings
    
    unassignedEvents
    
    boolean unassignedEvents
    
    useEchoes
    
    boolean useEchoes
    
    useSpeciesList
    
    boolean[] useSpeciesList
Package clickDetector.ClickClassifiers
- Class clickDetector.ClickClassifiers.ClickClassifyDialog
  
  class ClickClassifyDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    classifierDialogPanel
    
    ClassifyDialogPanel classifierDialogPanel
    
    classifierSpecificContainer
    
    JPanel classifierSpecificContainer
    
    classifyOnline
    
    JCheckBox classifyOnline
    
    clickControl
    
    ClickControl clickControl
    
    clickParameters
    
    ClickParameters clickParameters
    
    currentIdentifier
    
    ClickIdentifier currentIdentifier
    
    discardUnclassified
    
    JCheckBox discardUnclassified
    
    mainPanel
    
    JPanel mainPanel
    
    parentFrame
    
    Frame parentFrame
    
    typeList
    
    JComboBox typeList
- Class clickDetector.ClickClassifiers.ClickTypeCommonParams
  
  class ClickTypeCommonParams extends Object implements Serializable
  
  serialVersionUID:
  
  -6002534290706863277L
  - Serialized Fields
    
    alarm
    
    ClickAlarm alarm
    
    Alarm to be used for detection
    
    alarmEnabled
    
    Boolean alarmEnabled
    
    boolean indicating whether or not the alarm has been enabled
    
    discard
    
    Boolean discard
    
    True to discard classified clicks insteac of calssifiying them.
    
    maxTime
    
    long maxTime
    
    the maximum amount of time allowed (in milliseconds) between clicks to still be counted as a detection (for alarm purposes)
    
    name
    
    String name
    
    The name of the classifier
    
    prevTime
    
    long prevTime
    
    the time (in milliseconds) of the previous detection
    
    speciesCode
    
    int speciesCode
    
    The species code of the classifier
- Class clickDetector.ClickClassifiers.ClickTypesDialog
  
  class ClickTypesDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    basicClickIdParameters
    
    BasicClickIdParameters basicClickIdParameters
    
    columnNames
    
    String[] columnNames
    
    deleteButton
    
    JButton deleteButton
    
    downButton
    
    JButton downButton
    
    editButton
    
    JButton editButton
    
    newButton
    
    JButton newButton
    
    runOnline
    
    JCheckBox runOnline
    
    sampleRate
    
    float sampleRate
    
    tableData
    
    clickDetector.ClickClassifiers.ClickTypesDialog.ClickTypesTableData tableData
    
    typesTable
    
    JTable typesTable
    
    upButton
    
    JButton upButton

Package clickDetector.ClickClassifiers.basic

Class clickDetector.ClickClassifiers.basic.ClickTypeDialog

class ClickTypeDialog extends PamDialog implements Serializable

Serialized Fields

alarmChooser
```
JComboBox alarmChooser
```
ComboBox to list available alarms

alarmPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.AlarmPanel alarmPanel

band1Energy
```
JTextField[] band1Energy
```
band1Freq
```
JTextField[] band1Freq
```
band2Energy
```
JTextField[] band2Energy
```
band2Freq
```
JTextField[] band2Freq
```
bandEnergyDifference
```
JTextField bandEnergyDifference
```

basicClickIdParameters

BasicClickIdParameters basicClickIdParameters

clickControl
```
ClickControl clickControl
```
clickLength
```
JTextField[] clickLength
```
clickTypeParams
```
ClickTypeParams clickTypeParams
```
code
```
JTextField code
```
enableBoxes
```
JCheckBox[] enableBoxes
```

energyPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.EnergyPanel energyPanel

filtersButton
```
JButton filtersButton
```
lengthEnergyFraction
```
JTextField lengthEnergyFraction
```

lengthPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.LengthPanel lengthPanel

maxTime
```
JTextField maxTime
```
Maximum amount of elapsed time between detections to ring the alarm

meanFreqPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.MeanFreqPanel meanFreqPanel

meanSelRange
```
JTextField[] meanSelRange
```
meanSumRange
```
JTextField[] meanSumRange
```
name
```
JTextField name
```
peakFrequencyRange
```
JTextField[] peakFrequencyRange
```
peakFrequencySearch
```
JTextField[] peakFrequencySearch
```

peakPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.PeakPanel peakPanel

peakWidth
```
JTextField[] peakWidth
```

symbolPanel

clickDetector.ClickClassifiers.basic.ClickTypeDialog.SymbolPanel symbolPanel

symbolTypeButton
```
JButton symbolTypeButton
```
typeMenu
```
JPopupMenu typeMenu
```
widthEnergyFraction
```
JTextField widthEnergyFraction
```

Package clickDetector.ClickClassifiers.basicSweep

Class clickDetector.ClickClassifiers.basicSweep.CodeSpinnerModel

class CodeSpinnerModel extends AbstractSpinnerModel implements Serializable
- Serialized Fields
  - codehost
    
    CodeHost codehost
  - sweepClassifier
    
    SweepClassifier sweepClassifier

Class clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog

class SweepClassifierDialog extends PamDialog implements Serializable

Serialized Fields

alarmBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.AlarmBlock alarmBlock

alarmChooser
```
JComboBox alarmChooser
```
ComboBox to list available alarms

amplitudeBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.AmplitudeBlock amplitudeBlock

bearingBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.BearingBlock bearingBlock

classifierItemRow
```
int classifierItemRow
```
Need to check we're not refusing to allow to keep the same code !
clickControl
```
ClickControl clickControl
```
dbTextLength
```
int dbTextLength
```

energyBandsBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.EnergyBandsBlock energyBandsBlock

exportButton
```
JButton exportButton
```

filterBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.FilterBlock filterBlock

freqTextLength
```
int freqTextLength
```

idBlocks

ArrayList<clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.IdBlock> idBlocks

importButton
```
JButton importButton
```
importExport
```
ImportExport importExport
```

lengthBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.LengthBlock lengthBlock

maxTime
```
JTextField maxTime
```
Maximum amount of elapsed time between detections to ring the alarm

optionsBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.OptionsBlock optionsBlock

peakFreqBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.PeakFreqBlock peakFreqBlock

sweepClassifier
```
SweepClassifier sweepClassifier
```
sweepClassifierSet
```
SweepClassifierSet sweepClassifierSet
```

xCorrBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.XCorrBlock xCorrBlock

zeroXBlock

clickDetector.ClickClassifiers.basicSweep.SweepClassifierDialog.ZeroXBlock zeroXBlock

Class clickDetector.ClickClassifiers.basicSweep.SweepClassifierParameters

class SweepClassifierParameters extends Object implements Serializable

serialVersionUID:

1L
- Serialized Fields
  - checkAllClassifiers
    
    boolean checkAllClassifiers
    
    Test a click with all classifiers and add an add an annotation to the click with info on all classifiers it passed.
  - classifierSets
    
    Vector<SweepClassifierSet> classifierSets
Class clickDetector.ClickClassifiers.basicSweep.SweepClassifierSet

class SweepClassifierSet extends ClickTypeCommonParams implements Serializable

serialVersionUID:

1L
- Serialized Fields
  - activeVersion
    
    int activeVersion
  - amplitudeRange
    
    double[] amplitudeRange
  - bearingLims
    
    double[] bearingLims
  - channelChoices
    
    int channelChoices
  - controlEnergyBand
    
    double[][] controlEnergyBand
  - corrFactor
    
    double corrFactor
  - discard
    
    boolean discard
    
    Deprecated.
  - enable
    
    boolean enable
  - enableBearingLims
    
    boolean enableBearingLims
  - enableEnergyBands
    
    boolean enableEnergyBands
  - enableFFTFilter
    
    boolean enableFFTFilter
  - enableLength
    
    boolean enableLength
  - enableMean
    
    boolean enableMean
  - enableMinXCrossCorr
    
    boolean enableMinXCrossCorr
  - enablePeak
    
    boolean enablePeak
  - enablePeakXCorr
    
    boolean enablePeakXCorr
  - enableSweep
    
    boolean enableSweep
  - enableWidth
    
    boolean enableWidth
  - enableZeroCrossings
    
    boolean enableZeroCrossings
  - energyThresholds
    
    double[] energyThresholds
  - excludeBearingLims
    
    boolean excludeBearingLims
  - fftFilterParams
    
    FFTFilterParams fftFilterParams
  - lengthdB
    
    double lengthdB
  - lengthSmoothing
    
    int lengthSmoothing
  - maxLength
    
    double maxLength
  - meanRange
    
    double[] meanRange
  - minCorr
    
    double minCorr
  - minLength
    
    double minLength
  - name
    
    String name
    
    Deprecated.
    
    These next three parameters have been moved to a super class. However, for data to deserialise correctly, they need to be left in place and set when data are read back in ...
  - nCrossings
    
    int[] nCrossings
  - peakRange
    
    double[] peakRange
  - peakSearchRange
    
    double[] peakSearchRange
  - peakSmoothing
    
    int peakSmoothing
  - peakWidthRange
    
    double[] peakWidthRange
  - peakWidthThreshold
    
    double peakWidthThreshold
  - restrictedBins
    
    int restrictedBins
  - restrictedBinstype
    
    int restrictedBinstype
    
    The type of length restriction. O is around the click sensor and 1 is a simple trim from the start of the click.
  - restrictLength
    
    boolean restrictLength
  - speciesCode
    
    int speciesCode
    
    Deprecated.
  - symbol
    
    PamSymbol symbol
  - testAmplitude
    
    boolean testAmplitude
  - testEnergyBand
    
    double[] testEnergyBand
  - zcSweep
    
    double[] zcSweep

Package clickDetector.clicktrains
- Class clickDetector.clicktrains.ClickTrainIdParams
  
  class ClickTrainIdParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataVersion
    
    int dataVersion
    
    iciRange
    
    double[] iciRange
    
    iciUpdateRatio
    
    double iciUpdateRatio
    
    initialPerpendicularDistance
    
    double initialPerpendicularDistance
    
    maxIciChange
    
    double maxIciChange
    
    minAngleChange
    
    double minAngleChange
    
    minTrainClicks
    
    int minTrainClicks
    
    minUpdateGap
    
    int minUpdateGap
    
    okAngleError
    
    double okAngleError
    
    runClickTrainId
    
    boolean runClickTrainId
Package clickDetector.dataSelector
- Class clickDetector.dataSelector.ClickTrainDataSelect2Params
  
  class ClickTrainDataSelect2Params extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    includeUnclassified
    
    boolean includeUnclassified
    
    wantType
    
    Hashtable<String,Boolean> wantType
- Class clickDetector.dataSelector.ClickTrainSelectParameters
  
  class ClickTrainSelectParameters extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    defaultRange
    
    double defaultRange
    
    minBearingSeparation
    
    double minBearingSeparation
    
    minTimeSeparation
    
    double minTimeSeparation
    
    plotIndividualBearings
    
    boolean plotIndividualBearings
    
    showAutoTrains
    
    boolean showAutoTrains
    
    showManualTrains
    
    boolean showManualTrains
    
    showShortTrains
    
    int showShortTrains
Package clickDetector.dialogs
- Class clickDetector.dialogs.ClickAlarmDialog
  
  class ClickAlarmDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    addAlarm
    
    JButton addAlarm
    
    Buttons
    
    alarmChooser
    
    JComboBox alarmChooser
    
    Combo box for the alarm list
    
    alarmFileTxt
    
    JTextField alarmFileTxt
    
    Text field with the name of the user-selected alarm
    
    alarmList
    
    String[] alarmList
    
    Array list containing the alarms
    
    browseFiles
    
    JButton browseFiles
    
    Buttons
    
    buttonGroup
    
    ButtonGroup buttonGroup
    
    button group holding the radio buttons
    
    clickParameters
    
    ClickParameters clickParameters
    
    The parameters object
    
    currentAlarm
    
    ClickAlarm currentAlarm
    
    current alarm in the combo box
    
    defaultAlarm
    
    JRadioButton defaultAlarm
    
    Radio buttons allowing user to select default or other alarm
    
    fc
    
    JFileChooser fc
    
    JFileChooser for selecting the user-defined sound file
    
    removeAlarm
    
    JButton removeAlarm
    
    Buttons
    
    renameAlarm
    
    JButton renameAlarm
    
    Buttons
    
    userAlarm
    
    JRadioButton userAlarm
    
    Radio buttons allowing user to select default or other alarm
- Class clickDetector.dialogs.ClickDelayDialog
  
  class ClickDelayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    clickDelayPanel
    
    ClickDelayPanel clickDelayPanel
    
    clickParameters
    
    ClickParameters clickParameters
- Class clickDetector.dialogs.ClickDisplayDialog
  
  class ClickDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    amplitudeRange0
    
    JTextField amplitudeRange0
    
    amplitudeRange1
    
    JTextField amplitudeRange1
    
    angleTypes
    
    JComboBox<String> angleTypes
    
    btDisplayParameters
    
    BTDisplayParameters btDisplayParameters
    
    btPanel
    
    clickDetector.dialogs.ClickDisplayDialog.BTPanel btPanel
    
    clickControl
    
    ClickControl clickControl
    
    clickSelectParams
    
    ClickAlarmParameters clickSelectParams
    
    hGridiLines
    
    JTextField hGridiLines
    
    logICIScale
    
    JCheckBox logICIScale
    
    maxICI
    
    JTextField maxICI
    
    minICI
    
    JTextField minICI
    
    showAmplitude
    
    JRadioButton showAmplitude
    
    showBearing
    
    JRadioButton showBearing
    
    showEchoes
    
    JCheckBox showEchoes
    
    showICI
    
    JRadioButton showICI
    
    showSlant
    
    JRadioButton showSlant
    
    showUnassignedICI
    
    JCheckBox showUnassignedICI
    
    sizePanel
    
    clickDetector.dialogs.ClickDisplayDialog.SizePanel sizePanel
    
    speciesPanel
    
    clickDetector.dialogs.ClickDisplayDialog.SpeciesPanel speciesPanel
    
    trackedClickMarkers
    
    JCheckBox trackedClickMarkers
    
    view360
    
    JCheckBox view360
- Class clickDetector.dialogs.ClickMapDialog
  
  class ClickMapDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickParameters
    
    ClickParameters clickParameters
    
    Deprecated.
    
    individualBearings
    
    JCheckBox individualBearings
    
    Deprecated.
    
    lineLength
    
    JTextField lineLength
    
    Deprecated.
    
    minTheta
    
    JTextField minTheta
    
    Deprecated.
    
    minTime
    
    JTextField minTime
    
    Deprecated.
    
    showAll
    
    JRadioButton showAll
    
    Deprecated.
    
    showNone
    
    JRadioButton showNone
    
    Deprecated.
    
    showSome
    
    JRadioButton showSome
    
    Deprecated.
- Class clickDetector.dialogs.ClickParamsDialog
  
  class ClickParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    cancelButton
    
    JButton cancelButton
    
    clickControl
    
    ClickControl clickControl
    
    clickDelayPanel
    
    ClickDelayPanel clickDelayPanel
    
    clickParameters
    
    ClickParameters clickParameters
    
    echoDialogPanel
    
    EchoDialogPanel echoDialogPanel
    
    echoPanel
    
    clickDetector.dialogs.ClickParamsDialog.EchoPanel echoPanel
    
    lengthPanel
    
    clickDetector.dialogs.ClickParamsDialog.LengthPanel lengthPanel
    
    longFilter
    
    JTextField longFilter
    
    longFilter2
    
    JTextField longFilter2
    
    maxLength
    
    JTextField maxLength
    
    minSep
    
    JTextField minSep
    
    minTriggerChannels
    
    JTextField minTriggerChannels
    
    noisePanel
    
    clickDetector.dialogs.ClickParamsDialog.NoisePanel noisePanel
    
    okButton
    
    JButton okButton
    
    postSample
    
    JTextField postSample
    
    preSample
    
    JTextField preSample
    
    shortFilter
    
    JTextField shortFilter
    
    sourcePanel
    
    GroupedSourcePanel sourcePanel
    
    threshold
    
    JTextField threshold
    
    triggerList
    
    JCheckBox[] triggerList
    
    triggerPanel
    
    clickDetector.dialogs.ClickParamsDialog.TriggerPanel triggerPanel
- Class clickDetector.dialogs.ClickStorageOptionsDialog
  
  class ClickStorageOptionsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    browseDirectory
    
    JButton browseDirectory
    
    clickParameters
    
    ClickParameters clickParameters
    
    createRCFile
    
    JCheckBox createRCFile
    
    fc
    
    JFileChooser fc
    
    rcAutoNewFile
    
    JCheckBox rcAutoNewFile
    
    rcFileLength
    
    JTextField rcFileLength
    
    storageDirectory
    
    JTextField storageDirectory
    
    storageInitials
    
    JTextField storageInitials
- Class clickDetector.dialogs.ClickTrainIdDialog
  
  class ClickTrainIdDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    angleError
    
    JTextField angleError
    
    clickTrainIdParams
    
    ClickTrainIdParams clickTrainIdParams
    
    iciChange
    
    JTextField iciChange
    
    iciRange
    
    JTextField[] iciRange
    
    minAngleChange
    
    JTextField minAngleChange
    
    minTrainClicks
    
    JTextField minTrainClicks
    
    minUpdateGap
    
    JTextField minUpdateGap
    
    runClickTrainId
    
    JCheckBox runClickTrainId
- Class clickDetector.dialogs.OverlayOptionsDialog
  
  class OverlayOptionsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickParameters
    
    ClickParameters clickParameters
    
    radarColours
    
    ClickColoursPanel radarColours
    
    specColours
    
    ClickColoursPanel specColours
- Class clickDetector.dialogs.WaveDisplayDialog
  
  class WaveDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickParameters
    
    ClickParameters clickParameters
    
    clickWaveform
    
    ClickWaveform clickWaveform
    
    filterSettings
    
    JButton filterSettings
    
    fixedXScale
    
    JCheckBox fixedXScale
    
    separatePlots
    
    JRadioButton separatePlots
    
    showEnvelope
    
    JCheckBox showEnvelope
    
    singlePlot
    
    JRadioButton singlePlot
    
    viewFiltered
    
    JCheckBox viewFiltered
Package clickDetector.echoDetection
- Class clickDetector.echoDetection.EchoDialog
  
  class EchoDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    echoDetectionSystem
    
    EchoDetectionSystem echoDetectionSystem
    
    echoDialogPanel
    
    EchoDialogPanel echoDialogPanel
- Class clickDetector.echoDetection.JamieEchoParams
  
  class JamieEchoParams extends Object implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    maxAmpDifference
    
    double maxAmpDifference
    
    maxICIDifference
    
    double maxICIDifference
    
    maxIntervalSeconds
    
    double maxIntervalSeconds
- Class clickDetector.echoDetection.SimpleEchoParams
  
  class SimpleEchoParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxIntervalSeconds
    
    double maxIntervalSeconds
Package clickDetector.localisation
- Class clickDetector.localisation.ClickLocalisationDialog
  
  class ClickLocalisationDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clickGroupLocaliser
    
    ClickGroupLocaliser clickGroupLocaliser
    
    clickLocDialogPanel
    
    ClickLocDialogPanel clickLocDialogPanel
    
    okPressed
    
    boolean okPressed
- Class clickDetector.localisation.ClickLocParams
  
  class ClickLocParams extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    internalVersion
    
    int internalVersion
    
    isSelected
    
    boolean[] isSelected
    
    The selected localiser.
    
    limitLocPoints
    
    boolean limitLocPoints
    
    Put a limit on the maximum number of points to localise
    
    maxHeight
    
    double maxHeight
    
    The minimum depth (max height because that's the system we use in PAMGuard) in meters
    
    maxLocPoints
    
    int maxLocPoints
    
    Maximum number of points to localise
    
    maxRange
    
    double maxRange
    
    The maximum range in meters
    
    maxTime
    
    long maxTime
    
    The maximum time inb millis before a warning is shown
    
    minHeight
    
    double minHeight
    
    The maximum depth (min height because that's the system we use in PAMGuard) in meters
Package clickDetector.offlineFuncs
- Class clickDetector.offlineFuncs.DatabaseCheckDialog
  
  class DatabaseCheckDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    cancelButton
    
    JButton cancelButton
    
    check
    
    JRadioButton check
    
    checkAndFix
    
    JRadioButton checkAndFix
    
    clickControl
    
    ClickControl clickControl
    
    isRunning
    
    boolean isRunning
    
    okButton
    
    JButton okButton
    
    stopChecks
    
    boolean stopChecks
    
    taskProgress
    
    JProgressBar taskProgress
    
    taskText
    
    JTextField taskText
    
    textOutput
    
    JTextArea textOutput
- Class clickDetector.offlineFuncs.EditOfflineEventDialog
  
  class EditOfflineEventDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    eventNo
    
    JTextField eventNo
    
    offlineEventDataUnit
    
    OfflineEventDataUnit offlineEventDataUnit
- Class clickDetector.offlineFuncs.EventListDialog
  
  class EventListDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    mainPanel
    
    JPanel mainPanel
    
    offlineEventDataBlock
    
    OfflineEventDataBlock offlineEventDataBlock
    
    offlineEventListPanel
    
    OfflineEventListPanel offlineEventListPanel
    
    parentFrame
    
    Window parentFrame
- Class clickDetector.offlineFuncs.LabelClicksDialog
  
  class LabelClicksDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    markedClicks
    
    List<PamDataUnit> markedClicks
    
    newEventButton
    
    JButton newEventButton
    
    offlineEventDataBlock
    
    OfflineEventDataBlock offlineEventDataBlock
    
    offlineEventListPanel
    
    OfflineEventListPanel offlineEventListPanel
    
    overlayMark
    
    OverlayMark overlayMark
    
    parentFrame
    
    Window parentFrame
    
    selectedEvent
    
    OfflineEventDataUnit selectedEvent
    
    singleClick
    
    ClickDetection singleClick
- Class clickDetector.offlineFuncs.OfflienEventViewer
  
  class OfflienEventViewer extends PamDialog implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    offlineEventListPanel
    
    OfflineEventListPanel offlineEventListPanel
- Class clickDetector.offlineFuncs.OfflineEventDialog
  
  class OfflineEventDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    bestNum
    
    JTextField bestNum
    
    clickControl
    
    ClickControl clickControl
    
    colourButton
    
    JButton colourButton
    
    commentText
    
    DBTextArea commentText
    
    eventNumber
    
    JTextField eventNumber
    
    maxNum
    
    JTextField maxNum
    
    minNum
    
    JTextField minNum
    
    offlineEventDataUnit
    
    OfflineEventDataUnit offlineEventDataUnit
    
    speciesList
    
    LookupComponent speciesList
- Class clickDetector.offlineFuncs.OfflineEventViewer
  
  class OfflineEventViewer extends PamDialog implements Serializable
  - Serialized Fields
    
    clickControl
    
    ClickControl clickControl
    
    offlineEventListPanel
    
    OfflineEventListPanel offlineEventListPanel
- Class clickDetector.offlineFuncs.OfflineParameters
  
  class OfflineParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    analSelection
    
    int analSelection
    
    doClickId
    
    boolean doClickId

Package clickDetector.offlineFuncs.rcImport

Class clickDetector.offlineFuncs.rcImport.BatchRainbowFileConversion

class BatchRainbowFileConversion extends PamDialog implements Serializable

Serialized Fields

binaryStorageDialogPanel

BinaryStorageDialogPanel binaryStorageDialogPanel

binaryStore
```
BinaryStore binaryStore
```
binaryStoreSettings
```
BinaryStoreSettings binaryStoreSettings
```

clickBinaryDataSource

ClickBinaryDataSource clickBinaryDataSource

clickControl
```
ClickControl clickControl
```
clickDetector
```
ClickDetector clickDetector
```
clickParameters
```
ClickParameters clickParameters
```

conversionWorker

clickDetector.offlineFuncs.rcImport.BatchRainbowFileConversion.ConversionWorker conversionWorker

databaseBrowse
```
JButton databaseBrowse
```
databaseName
```
JTextField databaseName
```
importDatabase
```
AbstractButton importDatabase
```
rainbowFileMap
```
RainbowFileMap rainbowFileMap
```
rainbowFolder
```
SelectFolder rainbowFolder
```
rcFolderName
```
String rcFolderName
```
rcSubFolders
```
boolean rcSubFolders
```
readProgress
```
JProgressBar readProgress
```
readText
```
JLabel readText
```
stopFlag
```
boolean stopFlag
```
writeProgress
```
JProgressBar writeProgress
```
writeText
```
JLabel writeText
```

Class clickDetector.offlineFuncs.rcImport.RainbowDatabaseConversion

class RainbowDatabaseConversion extends PamDialog implements Serializable

Serialized Fields

binaryStore
```
BinaryStore binaryStore
```
clickControl
```
ClickControl clickControl
```
clicksOffline
```
ClicksOffline clicksOffline
```

conWorker

clickDetector.offlineFuncs.rcImport.RainbowDatabaseConversion.ConvertWorker conWorker

databaseBrowse
```
JButton databaseBrowse
```
databaseName
```
JTextField databaseName
```
dbConverter
```
RainbowDatabseConverter dbConverter
```
importDatabase
```
JCheckBox importDatabase
```
progressBar
```
JProgressBar progressBar
```
progressText
```
JLabel progressText
```
stopNow
```
boolean stopNow
```

Package clickDetector.tdPlots
- Class clickDetector.tdPlots.ClickSymbolOptions
  
  class ClickSymbolOptions extends StandardSymbolOptions implements Serializable
  
  serialVersionUID:
  
  1L

Package clickDetector.waveCorrector

Class clickDetector.waveCorrector.WaveCorrector

class WaveCorrector extends PamDialog implements Serializable

Serialized Fields

channels
```
int[] channels
```
click
```
ClickDetection click
```
clickControl
```
ClickControl clickControl
```

correlationAxes

clickDetector.waveCorrector.WaveCorrector.CorrelationAxes correlationAxes

correlationPlot

clickDetector.waveCorrector.WaveCorrector.CorrelationPlot correlationPlot

correlations
```
Correlations correlations
```
corrFunction
```
double[] corrFunction
```
currC
```
JLabel currC
```
currDelay
```
JLabel currDelay
```
currS
```
JLabel currS
```
currT
```
JLabel currT
```
interpolatedMaxima
```
double[][] interpolatedMaxima
```
markLength
```
int markLength
```
maxC
```
JLabel maxC
```
maxDelay
```
JLabel maxDelay
```
maxS
```
JLabel maxS
```
maxT
```
JLabel maxT
```
maxTime
```
double maxTime
```
preferredSize
```
Dimension preferredSize
```
returnValue
```
Boolean returnValue
```
sampleRate
```
double sampleRate
```
setMaxButton
```
JButton setMaxButton
```
timeOffset
```
double timeOffset
```

waveformAxes

clickDetector.waveCorrector.WaveCorrector.WaveformAxes waveformAxes

waveformPlot

clickDetector.waveCorrector.WaveCorrector.WaveformPlot waveformPlot

waveMax
```
double waveMax
```
waves
```
double[][] waves
```
waveStarts
```
int[] waveStarts
```

Package clickTrainDetector
- Class clickTrainDetector.ClickTrainParams
  
  class ClickTrainParams extends Object implements Serializable
  
  serialVersionUID:
  
  8L
  - Serialized Fields
    
    channelGroups
    
    int[] channelGroups
    
    The channel groups to be used in the click train detector.
    
    ctClassifierParams
    
    CTClassifierParams[] ctClassifierParams
    
    A list of classification parameters for each classifier.
    
    ctDetectorType
    
    int ctDetectorType
    
    The selected type of click train detector.
    
    ctLocParams
    
    CTLocParams ctLocParams
    
    Localisation parameters for the click train localisation. (target motion and summary bearing info)
    
    dataSourceIndex
    
    int dataSourceIndex
    
    The index of the data source.
    
    dataSourceName
    
    String dataSourceName
    
    The data source name.
    
    runClassifier
    
    boolean runClassifier
    
    Run the click train classifier.
    
    simpleCTClassifier
    
    Chi2ThresholdParams simpleCTClassifier
    
    A simple initial classifier which junks click trains below a certain length and above a certain chi2 value. This ensure that not all clicks are saved to the database which would take up a lot of storage and possibly destabilise PAMGuard. It also ensure that enough click trains are saved so that species classifiers can be tweaked.
    
    useDataSelector
    
    boolean useDataSelector
    
    True to use the data selector to pre filter clicks
Package clickTrainDetector.classification
- Class clickTrainDetector.classification.CTClassifierParams
  
  class CTClassifierParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    classifierName
    
    String classifierName
    
    The name of the classifier.
    
    speciesFlag
    
    int speciesFlag
    
    A very simple species flag to indicate what classifier was used. 0 means not classified.
    
    type
    
    CTClassifierType type
    
    Easy way to know which classifier the parameter class belong to rather than big instance of statement
    
    uniqueID
    
    String uniqueID
    
    A unique ID for the classifier that never changes. This is important for accessing data selectors.
Package clickTrainDetector.classification.bearingClassifier
- Class clickTrainDetector.classification.bearingClassifier.BearingClassifierParams
  
  class BearingClassifierParams extends CTClassifierParams implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    bearingLimMax
    
    double bearingLimMax
    
    The maximum limit in which the classifier works.
    
    bearingLimMin
    
    double bearingLimMin
    
    The minimum bearing limits in which the classifier works
    
    maxMeanBearingD
    
    double maxMeanBearingD
    
    The minimum mean bearing derivative (radian/second)
    
    maxMedianBearingD
    
    double maxMedianBearingD
    
    The minimum mean bearing derivative (radian/second)
    
    maxStdBearingD
    
    double maxStdBearingD
    
    The minimum standard deviation in bearing derivative (radian/second)
    
    minMeanBearingD
    
    double minMeanBearingD
    
    The minimum mean bearing derivative (radian/second)
    
    minMedianBearingD
    
    double minMedianBearingD
    
    The minimum mean bearing derivative (radian/second)
    
    minStdBearingD
    
    double minStdBearingD
    
    The minimum standard deviation in bearing derivative (radian/second)
    
    speciesFlag
    
    int speciesFlag
    
    The default species flag.
    
    useMean
    
    boolean useMean
    
    Bearing derivatives (in radians per second)
    
    useMedian
    
    boolean useMedian
    
    useStD
    
    boolean useStD
    
    True to consider
Package clickTrainDetector.classification.idiClassifier
- Class clickTrainDetector.classification.idiClassifier.IDIClassifierParams
  
  class IDIClassifierParams extends CTClassifierParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxMeanIDI
    
    Double maxMeanIDI
    
    The maximum median ICI
    
    maxMedianIDI
    
    Double maxMedianIDI
    
    The maximum median ICI
    
    maxStdIDI
    
    Double maxStdIDI
    
    The maximum standard deviation in ICI
    
    minMeanIDI
    
    Double minMeanIDI
    
    The minimum median ICI.
    
    minMedianIDI
    
    Double minMedianIDI
    
    The minimim median ICI.
    
    minStdIDI
    
    Double minStdIDI
    
    The minimum standard deviation in ICI.
    
    useMeanIDI
    
    boolean useMeanIDI
    
    Use the mean ICI measurements.
    
    useMedianIDI
    
    boolean useMedianIDI
    
    Use the median ICI measurements
    
    useStdIDI
    
    boolean useStdIDI
    
    Use the mean ICI measurements
Package clickTrainDetector.classification.simplechi2classifier
- Class clickTrainDetector.classification.simplechi2classifier.Chi2ThresholdParams
  
  class Chi2ThresholdParams extends CTClassifierParams implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    chi2Threshold
    
    double chi2Threshold
    
    The chi2 threshold to set. This is the chi2 value divided by the number of clicks in the train. If zero then the classification always passes...A bit of a hack for testing
    
    minClicks
    
    int minClicks
    
    The minimum number of clicks.
    
    minPercentage
    
    double minPercentage
    
    The minimum %percentage which must the parent data selector of clicks/ . values are 0-1.
    
    minTime
    
    double minTime
    
    The minimum time in seconds.
Package clickTrainDetector.classification.standardClassifier
- Class clickTrainDetector.classification.standardClassifier.StandardClassifierParams
  
  class StandardClassifierParams extends CTClassifierParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    ctClassifierParams
    
    CTClassifierParams[] ctClassifierParams
    
    List of the classifier parameters used.
    
    enable
    
    boolean[] enable
    
    List of which classifiers are enabled.
Package clickTrainDetector.classification.templateClassifier
- Class clickTrainDetector.classification.templateClassifier.SpectrumTemplateParams
  
  class SpectrumTemplateParams extends Object implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    name
    
    String name
    
    The name of the template.
    
    sampleRate
    
    float sampleRate
    
    The sample rate in Hz
    
    template
    
    double[] template
    
    The spectrum template data.
- Class clickTrainDetector.classification.templateClassifier.TemplateClassifierParams
  
  class TemplateClassifierParams extends CTClassifierParams implements Serializable
  
  serialVersionUID:
  
  10L
  - Serialized Fields
    
    corrThreshold
    
    Double corrThreshold
    
    The correlation threshold.
    
    spectrumTemplate
    
    MatchTemplate spectrumTemplate
    
    Match FFT template.
- Class clickTrainDetector.classification.templateClassifier.TemplateCorrParams
  
  class TemplateCorrParams extends CTClassifierParams implements Serializable
  - Serialized Fields
    
    corrThreshold
    
    Double corrThreshold
    
    The correlation threshold.
    
    spectrumTemplate
    
    MatchTemplate spectrumTemplate
    
    Match FFT template.
Package clickTrainDetector.clickTrainAlgorithms.mht
- Class clickTrainDetector.clickTrainAlgorithms.mht.MHTChi2Params
  
  class MHTChi2Params extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxICI
    
    double maxICI
    
    The absolute maximum ICI for a click train in seconds!
- Class clickTrainDetector.clickTrainAlgorithms.mht.MHTKernelParams
  
  class MHTKernelParams extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    maxCoast
    
    int maxCoast
    
    The maximum number of coasts i.e. missing clicks before a click train is saved.
    
    nHold
    
    int nHold
    
    The maximum number of unique branches past the pruneBack point to keep
    
    nPruneback
    
    int nPruneback
    
    The branches are pruned to nHold number of branches by going back nPruneBack values.
    
    nPruneBackStart
    
    int nPruneBackStart
    
    The minimum number of added detections to the probability matrix allowed before a prune back of possibilities takes place.
- Class clickTrainDetector.clickTrainAlgorithms.mht.MHTParams
  
  class MHTParams extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    chi2Params
    
    MHTChi2Params chi2Params
    
    Parameters for chi^2 params. This can be any method to calculate a chi^2 value from a click train.
    
    mhtKernal
    
    MHTKernelParams mhtKernal
    
    MHT Kernel params.
- Class clickTrainDetector.clickTrainAlgorithms.mht.StandardMHTChi2Params
  
  class StandardMHTChi2Params extends MHTChi2Params implements Serializable
  
  serialVersionUID:
  
  12L
  - Serialized Fields
    
    chi2Settings
    
    Object[] chi2Settings
    
    Simply stores bespoke settings class for mhtChi2Vars; Only used because ArrayListinvalid input: '<'MHTChi2Var> is not serializable.
    
    coastPenalty
    
    double coastPenalty
    
    The penalty factor for a single coast.
    
    electricalNoiseParams
    
    SimpleElectricalNoiseParams electricalNoiseParams
    
    Simple electrical noise parameters.
    
    enable
    
    boolean[] enable
    
    List of enabled params.
    
    longTrackBonus
    
    double longTrackBonus
    
    Deprecated.
    
    The bonus factor for having a longer track.
    
    longTrackExponent
    
    double longTrackExponent
    
    Exponent for the long track bonus - no point in using a multiplier because then just multiplying all tracks by the same number. Thus the higher this is the more the more weight is given to longer tracks. Make zero to remove bonus
    
    lowICIExponent
    
    double lowICIExponent
    
    Exponent for the low ICI track bonus - no point in using a multiplier because then just multiplying all tracks by the same number. Thus the higher this is the more the more weight is given to loweer ICI tracks. Make zero to remove bonus.
    
    lowTrackICIBonus
    
    double lowTrackICIBonus
    
    Deprecated.
    
    Bonus factor for a track with lower ICI.
    
    maxICIMultipler
    
    double maxICIMultipler
    
    Deprecated.
    
    The maximum multiple of the median ICI of a track that maximum ICI of the track can be. Deprecated. No longer used.
    
    newTrackN
    
    int newTrackN
    
    The maximum number of detections after which a track is no longer considered a new track.
    
    newTrackPenalty
    
    double newTrackPenalty
    
    The penalty factor for starting a new track.
    
    useCorrelation
    
    boolean useCorrelation
    
    True to use cross correlation to calculate ICI values.
    
    useElectricNoiseFilter
    
    boolean useElectricNoiseFilter
    
    True to add a test as to whether data is too consistent, i.e. likely to be electrical noise..
Package clickTrainDetector.clickTrainAlgorithms.mht.electricalNoiseFilter
- Class clickTrainDetector.clickTrainAlgorithms.mht.electricalNoiseFilter.SimpleElectricalNoiseParams
  
  class SimpleElectricalNoiseParams extends Object implements Serializable
  
  serialVersionUID:
  
  7L
  - Serialized Fields
    
    minChi2
    
    double minChi2
    
    The minimum chi^2 value allowed
    
    nDataUnits
    
    int nDataUnits
    
    The minimum number of data units before a test can add a penalty factor.
Package clickTrainDetector.clickTrainAlgorithms.mht.mhtvar
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.AmplitudeChi2Params
  
  class AmplitudeChi2Params extends SimpleChi2VarParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    ampJumpEnable
    
    boolean ampJumpEnable
    
    Whether the bearing jump is used.
    
    maxAmpJump
    
    double maxAmpJump
    
    The maximum allowed bearing bearing jump in a click train in RADIANS
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.BearingChi2VarParams
  
  class BearingChi2VarParams extends SimpleChi2VarParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bearingJumpDrctn
    
    BearingChi2VarParams.BearingJumpDrctn bearingJumpDrctn
    
    Whether the bearing jump can be in both directions, positive or negative. Note that this is useful for towed hydrophone arrays were we would almost always expect bearing changes to move from positive to negative. If a jump is for example, positive, then only large positive jumps will incure a penalty. Large negative jumps will be ignored (however will still create higher chi^2 values making them less diserable for the click train detector )
    
    bearingJumpEnable
    
    boolean bearingJumpEnable
    
    Whether the bearing jump is used.
    
    maxBearingJump
    
    double maxBearingJump
    
    The maximum allowed bearing bearing jump in a click train in RADIANS
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.CorrelationChi2Params
  
  class CorrelationChi2Params extends SimpleChi2VarParams implements Serializable
  
  serialVersionUID:
  
  4L
  - Serialized Fields
    
    fftFilterParams
    
    FFTFilterParams fftFilterParams
    
    The filter parameters. How the waveforms are filtered before corss correlation values are calculated.
    
    useFilter
    
    boolean useFilter
    
    Use a filter for correlation calculations.
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.CorrelationMap
  
  class CorrelationMap extends HashMap<Long,CorrelationValue> implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataUnitUID
    
    long dataUnitUID
    
    The UID of the master data unit the correlation map belongs to.
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.IDIChi2Params
  
  class IDIChi2Params extends SimpleChi2VarParams implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    minIDI
    
    double minIDI
    
    The minimum IDI before a large Chi2 penalty is added.
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.SimpleChi2VarParams
  
  class SimpleChi2VarParams extends Object implements Serializable
  
  serialVersionUID:
  
  10L
  - Serialized Fields
    
    errLimits
    
    double[] errLimits
    
    Deprecated.
    
    The limits in which a user can change the slider. Only used with GUI for slider
    
    error
    
    double error
    
    The error value. This changes the relevance of the particular chi2 val.
    
    errorScaleValue
    
    double errorScaleValue
    
    Get the scaling value for the MHT variable. The scaling value is used to set the scale for input controls so that users can set relative rather than absolute errors. It's essentially a guess at the standard error. So for example it might be 10 for amplitude because it's on the dB scale and perhaps 0.01 for the ICI value because the units are in seconds.
    
    minError
    
    double minError
    
    The minimum error value allowed. This is used if error*ICI invalid input: '<' minError.
    
    name
    
    String name
    
    The name of the MHT variable.
    
    unitString
    
    String unitString
    
    Units string.
- Class clickTrainDetector.clickTrainAlgorithms.mht.mhtvar.TimeDelayParams
  
  class TimeDelayParams extends SimpleChi2VarParams implements Serializable
  
  serialVersionUID:
  
  1L
Package clickTrainDetector.dataselector
- Class clickTrainDetector.dataselector.CTSelectParams
  
  class CTSelectParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    allowAnyClassification
    
    boolean allowAnyClassification
    
    True of the click train detector needs a classifcation No !!!! This 'needsClassification' variable was been used the wrong way around throughout and is screwing the classiifer. I've therefore replaced it with the variable allowAll which is how this is actually used ! Given that anything using this would have has screwed logic, I don't care if I break a config or two ! DG 22/9/22
    
    allowMultipleChoices
    
    boolean allowMultipleChoices
    
    In the data selector, if this is false it will only look at the best classifier, i.e. the one with the best classifier score. If set true it will check every species above min score even if it's not the first classification choice.
    
    classifier
    
    int[] classifier
    
    The classifier type(s) to select
    
    maxAngleChange
    
    double maxAngleChange
    
    The angle change at which a new bearing line is drawn. Note that minTime overrides the maxAngle in RADIANS
    
    maxTime
    
    long maxTime
    
    The maximum time between bearing lines being drawn on the map in millis
    
    minSubDetections
    
    int minSubDetections
    
    The minimum number of sub detections before a click train is plotted.
    
    minTime
    
    long minTime
    
    The minimum time between bearing lines being drawn on the map in millis
    
    needsLoc
    
    boolean needsLoc
    
    Remove if has localisation
Package clickTrainDetector.layout.mht
- Class clickTrainDetector.layout.mht.MHTSidePaneSwing.BufferPanel
  
  class BufferPanel extends PamPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bufferBar
    
    JProgressBar bufferBar
    
    A progress bar showing buffer
    
    bufferLabel
    
    JLabel bufferLabel
    
    Label showing % full.
    
    channelLabel
    
    JLabel channelLabel
    
    The channel a label
    
    channels
    
    int channels
    
    The channel bitmap this represents.
    
    posLabel
    
    JLabel posLabel
Package clickTrainDetector.localisation
- Class clickTrainDetector.localisation.CTLocParams
  
  class CTLocParams extends TMAnnotationOptions implements Serializable
  
  serialVersionUID:
  
  4L
  - Serialized Fields
    
    minAngleRange
    
    double minAngleRange
    
    The minimum angle range before attempting a localisation
    
    minDataUnits
    
    int minDataUnits
    
    The minimum number of data units within a detection before attempting a localisation
    
    shouldloc
    
    boolean shouldloc
    
    True to attempt a loclaisation.
Package clickTrainDetector.offline
- Class clickTrainDetector.offline.CTProcessDialog
  
  class CTProcessDialog extends OLProcessDialog implements Serializable
  
  serialVersionUID:
  
  1L
Package clipgenerator
- Class clipgenerator.ClipDialog
  
  class ClipDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clipControl
    
    ClipControl clipControl
    
    clipPanel
    
    clipgenerator.ClipDialog.ClipPanel clipPanel
    
    clipSettings
    
    ClipSettings clipSettings
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    storagePanel
    
    clipgenerator.ClipDialog.StoragePanel storagePanel
- Class clipgenerator.ClipDisplayDialog
  
  class ClipDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clipSettings
    
    ClipSettings clipSettings
    
    rangeFields
    
    JTextField[] rangeFields
- Class clipgenerator.ClipGenSetting
  
  class ClipGenSetting extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    budgetPeriodHours
    
    double budgetPeriodHours
    
    Budget period in hours.
    
    channelSelection
    
    int channelSelection
    
    Channel selection, all, first, one, etc.
    
    clipPrefix
    
    String clipPrefix
    
    prefix for the clip (ahead of the date string). Can be null in which case the default is used.
    
    dataBudget
    
    int dataBudget
    
    Data budget in kilobytes.
    
    dataName
    
    String dataName
    
    Data name of the trigger data block.
    
    enable
    
    boolean enable
    
    Enabled
    
    hadMapLine
    
    boolean hadMapLine
    
    mapLineLength
    
    Double mapLineLength
    
    Length of line to display on map in metres.
    
    postSeconds
    
    double postSeconds
    
    Seconds after end of trigger.
    
    preSeconds
    
    double preSeconds
    
    Seconds before start of trigger
    
    useDataBudget
    
    boolean useDataBudget
    
    If false, then record absolutely everything.
- Class clipgenerator.ClipGenSettingDialog
  
  class ClipGenSettingDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    budgetOff
    
    JRadioButton budgetOff
    
    budgetOn
    
    JRadioButton budgetOn
    
    budgetPeriod
    
    JTextField budgetPeriod
    
    channelSel
    
    JComboBox channelSel
    
    clipGenSetting
    
    ClipGenSetting clipGenSetting
    
    dataBudget
    
    JTextField dataBudget
    
    fileInitials
    
    JTextField fileInitials
    
    postSeconds
    
    JTextField postSeconds
    
    preSeconds
    
    JTextField preSeconds
- Class clipgenerator.ClipSettings
  
  class ClipSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clipGenSettings
    
    ArrayList<ClipGenSetting> clipGenSettings
    
    List of clip generator settings.
    
    compressorIndex
    
    int compressorIndex
    
    Id of compressor to use to squish data (currently only used in Annotation version, need to add to Integer version).
    
    dataSourceName
    
    String dataSourceName
    
    Raw Audio Data source.
    
    datedSubFolders
    
    boolean datedSubFolders
    
    outputFolder
    
    String outputFolder
    
    output file folder.
    
    storageOption
    
    int storageOption
Package clipgenerator.clipDisplay
- Class clipgenerator.clipDisplay.ClipDisplayParameters
  
  class ClipDisplayParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    amlitudeMinVal
    
    double amlitudeMinVal
    
    amplitudeMinMax
    
    double amplitudeMinMax
    
    amplitudeMinMin
    
    double amplitudeMinMin
    
    Values used to set max and min values for the controls.
    
    amplitudeMinStep
    
    double amplitudeMinStep
    
    amplitudeRangeMax
    
    double amplitudeRangeMax
    
    amplitudeRangeMin
    
    double amplitudeRangeMin
    
    amplitudeRangeStep
    
    double amplitudeRangeStep
    
    amplitudeRangeVal
    
    double amplitudeRangeVal
    
    colourMap
    
    ColourArray.ColourArrayType colourMap
    
    frequencyScale
    
    double frequencyScale
    
    imageHScale
    
    double imageHScale
    
    imageVScale
    
    double imageVScale
    
    logFFTLength
    
    int logFFTLength
    
    maxClips
    
    int maxClips
    
    maxMinutes
    
    int maxMinutes
    
    newClipOrder
    
    int newClipOrder
    
    showControlPanel
    
    boolean showControlPanel
    
    showTriggerOverlay
    
    boolean showTriggerOverlay
- Class clipgenerator.clipDisplay.ClipDisplayUnit
  
  class ClipDisplayUnit extends PamPanel implements Serializable
  - Serialized Fields
    
    axisPanel
    
    JPanel axisPanel
    
    borderSize
    
    int borderSize
    
    chanCol
    
    Color chanCol
    
    clipDataUnit
    
    ClipDataUnit clipDataUnit
    
    clipDisplayPanel
    
    ClipDisplayPanel clipDisplayPanel
    
    displayDecorations
    
    ClipDisplayDecorations displayDecorations
    
    fm
    
    FontMetrics fm
    
    fontAscent
    
    int fontAscent
    
    fontHeight
    
    int fontHeight
    
    highlighPane
    
    clipgenerator.clipDisplay.ClipDisplayUnit.HighlightPane highlighPane
    
    highlight
    
    boolean highlight
    
    image
    
    BufferedImage image
    
    imagePanel
    
    clipgenerator.clipDisplay.ClipDisplayUnit.ImagePanel imagePanel
    
    mainPanel
    
    PamPanel mainPanel
    
    triggerDataUnit
    
    PamDataUnit triggerDataUnit
- Class clipgenerator.clipDisplay.ClipLayout
  
  class ClipLayout extends FlowLayout implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    panelWidth
    
    int panelWidth
Package cpod
- Class cpod.CPODDataGram
  
  class CPODDataGram extends Datagram implements Serializable
  
  serialVersionUID:
  
  1L
- Class cpod.CPODDataMapPoint
  
  class CPODDataMapPoint extends OfflineFileMapPoint implements Serializable
  - Serialized Fields
    
    dataGram
    
    Datagram dataGram
    
    filePos
    
    long filePos
- Class cpod.CPODDialog
  
  class CPODDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    cpodControl
    
    CPODControl cpodControl
    
    Deprecated.
    
    cpodParams
    
    CPODParams cpodParams
    
    Deprecated.
    
    selectFolder
    
    SelectFolder selectFolder
    
    Deprecated.
    
    startOffset
    
    JTextField startOffset
    
    Deprecated.
    
    timeStretch
    
    JTextField timeStretch
    
    Deprecated.
- Class cpod.CPODParams
  
  class CPODParams extends OfflineFileParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    startOffset
    
    double startOffset
    
    timeStretch
    
    double timeStretch
Package cpod.dataSelector
- Class cpod.dataSelector.CPODDatSelectorParams
  
  class CPODDatSelectorParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  5L
  - Serialized Fields
    
    cpodDataFilterParams
    
    ArrayList<StandardCPODFilterParams> cpodDataFilterParams
- Class cpod.dataSelector.StandardCPODFilterParams
  
  class StandardCPODFilterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataType
    
    int dataType
    
    The data to extract from the CPOD
    
    max
    
    double max
    
    The maximum value for the CPOD data
    
    min
    
    double min
    
    The minimum value for the CPOD data
Package crossedbearinglocaliser
- Class crossedbearinglocaliser.CBLocaliserSettngs
  
  class CBLocaliserSettngs extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    minDetections
    
    int minDetections
    
    parentDataBlock
    
    String parentDataBlock
    
    tmAnnotationOptions
    
    TMAnnotationOptions tmAnnotationOptions
Package d3
- Class d3.D3DataMapPoint
  
  class D3DataMapPoint extends OfflineFileMapPoint implements Serializable
  - Serialized Fields
    
    fileOffsetEnd
    
    long fileOffsetEnd
    
    Offset for the end of the data in this file from the start of the file - stops anything trying to read too far.
    
    fileOffsetStart
    
    long fileOffsetStart
    
    Offset of the data in this file from the start of the file.
Package dataGram
- Class dataGram.Datagram
  
  class Datagram extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataPoints
    
    ArrayList<DatagramDataPoint> dataPoints
    
    intervalSeconds
    
    int intervalSeconds
    
    offlineDataMapPoint
    
    OfflineDataMapPoint offlineDataMapPoint
- Class dataGram.DatagramDataPoint
  
  class DatagramDataPoint extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    data
    
    float[] data
    
    datagram
    
    Datagram datagram
    
    endTime
    
    long endTime
    
    nDataUnits
    
    int nDataUnits
    
    startTime
    
    long startTime
- Class dataGram.DatagramDialog
  
  class DatagramDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    datagramManager
    
    DatagramManager datagramManager
    
    datagramSeconds
    
    JTextField datagramSeconds
    
    datagramSettings
    
    DatagramSettings datagramSettings
    
    infoArea
    
    JLabel infoArea
- Class dataGram.DatagramProgressDialog
  
  class DatagramProgressDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    blockName
    
    JLabel blockName
    
    currentMapPoint
    
    BinaryOfflineDataMapPoint currentMapPoint
    
    fileProgress
    
    JProgressBar fileProgress
    
    mapPointProgress
    
    JProgressBar mapPointProgress
    
    nDataBlocks
    
    int nDataBlocks
    
    nMapPoints
    
    int nMapPoints
    
    textMsg
    
    JLabel textMsg
- Class dataGram.DatagramSettings
  
  class DatagramSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    datagramSeconds
    
    int datagramSeconds
    
    displayMultiplier
    
    int displayMultiplier
    
    validDatagramSettings
    
    boolean validDatagramSettings
Package dataMap
- Class dataMap.DataMapPanel
  
  class DataMapPanel extends PamBorderPanel implements Serializable
  - Serialized Fields
    
    dataMapControl
    
    DataMapControl dataMapControl
    
    graphDimension
    
    Dimension graphDimension
    
    scalePanel
    
    ScalePanel scalePanel
    
    scrollingDataPanel
    
    ScrollingDataPanel scrollingDataPanel
    
    summaryPanel
    
    SummaryPanel summaryPanel
- Class dataMap.DataMapParameters
  
  class DataMapParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    hScaleChoice
    
    int hScaleChoice
    
    vLogScale
    
    boolean vLogScale
    
    vScaleChoice
    
    int vScaleChoice
- Class dataMap.DataStreamPanel
  
  class DataStreamPanel extends JPanel implements Serializable
  - Serialized Fields
    
    arrowX
    
    double[] arrowX
    
    arrowY
    
    double[] arrowY
    
    binaryColour
    
    Color binaryColour
    
    databaseColour
    
    Color databaseColour
    
    dataBlock
    
    PamDataBlock dataBlock
    
    datagramImage
    
    BufferedImage datagramImage
    
    dataGraph
    
    DataStreamPanel.DataGraph dataGraph
    
    dataMapControl
    
    DataMapControl dataMapControl
    
    dataName
    
    dataMap.DataStreamPanel.DataName dataName
    
    endTimeArrow
    
    Polygon endTimeArrow
    
    graphMenu
    
    JPopupMenu graphMenu
    
    graphVisible
    
    boolean graphVisible
    
    hasDatagram
    
    boolean hasDatagram
    
    haveDataColour
    
    Color haveDataColour
    
    lastPlotted2DmaxVal
    
    double lastPlotted2DmaxVal
    
    lastPlotted2DminVal
    
    double lastPlotted2DminVal
    
    maxDatas
    
    int maxDatas
    
    menuMouseTime
    
    long menuMouseTime
    
    minMaxVal
    
    double[] minMaxVal
    
    pixelsPerMilli
    
    double pixelsPerMilli
    
    scrollingDataPanel
    
    ScrollingDataPanel scrollingDataPanel
    
    showDataCounts
    
    boolean showDataCounts
    
    showDataCountsMenu
    
    JCheckBoxMenuItem showDataCountsMenu
    
    showDatagram
    
    boolean showDatagram
    
    showDatagramMenu
    
    JCheckBoxMenuItem showDatagramMenu
    
    startTimeArrow
    
    Polygon startTimeArrow
    
    totalDatas
    
    int totalDatas
    
    totalWheelRotation
    
    int totalWheelRotation
    
    wheelScrollFactor
    
    double wheelScrollFactor
    
    yAxis
    
    PamAxis yAxis
    
    yScaleMax
    
    double yScaleMax
    
    yScaleMin
    
    double yScaleMin
- Class dataMap.DataStreamPanel.DataGraph
  
  class DataGraph extends JPanelWithPamKey implements Serializable
  - Serialized Fields
    
    datagramColours
    
    ColourArray datagramColours
- Class dataMap.OfflineDataMapPoint
  
  class OfflineDataMapPoint extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    endTime
    
    long endTime
    
    End time of map point data
    
    missingUIDs
    
    long missingUIDs
    
    nDatas
    
    int nDatas
    
    Number of data points.
    
    startTime
    
    long startTime
    
    Start time of map point data
- Class dataMap.ScrollingDataPanel
  
  class ScrollingDataPanel extends PamBorderPanel implements Serializable
  - Serialized Fields
    
    boxLayout
    
    BoxLayout boxLayout
    
    dataMapControl
    
    DataMapControl dataMapControl
    
    dataMapLayout
    
    DataMapLayout dataMapLayout
    
    dataMapPanel
    
    DataMapPanel dataMapPanel
    
    dataStreamPanels
    
    ArrayList<DataStreamPanel> dataStreamPanels
    
    hScrollBar
    
    JScrollBar hScrollBar
    
    lastHScaleChoice
    
    int lastHScaleChoice
    
    lastWidth
    
    int lastWidth
    
    mainScrollPane
    
    JScrollPane mainScrollPane
    
    needScrollUpdate
    
    boolean needScrollUpdate
    
    offlineDataStores
    
    ArrayList<OfflineDataStore> offlineDataStores
    
    List of offline data sources.
    
    screenEndMillis
    
    long screenEndMillis
    
    screenSeconds
    
    double screenSeconds
    
    screenStartMillis
    
    long screenStartMillis
    
    scrolledPanel
    
    JPanel scrolledPanel
    
    Scrolled panel which will contain the actual DataStreamPanels
    
    scrollPanelContainer
    
    JPanel scrollPanelContainer
    
    settingsStrip
    
    SettingsStrip settingsStrip
    
    updateTimer
    
    Timer updateTimer
- Class dataMap.SettingsStrip
  
  class SettingsStrip extends JPanelWithPamKey implements Serializable
  - Serialized Fields
    
    pamController
    
    PamController pamController
    
    pixelsPerMilli
    
    double pixelsPerMilli
    
    quickFinds
    
    LinkedList<dataMap.SettingsStrip.DrawnQuickFind> quickFinds
    
    scrollingDataPanel
    
    ScrollingDataPanel scrollingDataPanel
    
    startMillis
    
    long startMillis
Package dataMap.filemaps
- Class dataMap.filemaps.FileDataMapPoint
  
  class FileDataMapPoint extends OfflineDataMapPoint implements Serializable
  
  serialVersionUID:
  
  4955333805088379820L
  - Serialized Fields
    
    soundFile
    
    File soundFile
- Class dataMap.filemaps.FileMapMakingdialog
  
  class FileMapMakingdialog extends PamDialog implements Serializable
  - Serialized Fields
    
    fileName
    
    JLabel fileName
    
    offlineFileServer
    
    OfflineFileServer offlineFileServer
    
    progress
    
    JProgressBar progress
- Class dataMap.filemaps.OfflineFileParameters
  
  class OfflineFileParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    enable
    
    boolean enable
    
    Enable offline file access
    
    folderName
    
    String folderName
    
    Reference to wherever the offline files are.
    
    includeSubFolders
    
    boolean includeSubFolders
    
    include sub folders
Package dataModelFX
- Class dataModelFX.DataModelPaneFXSettings
  
  class DataModelPaneFXSettings extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    usedModuleInfos
    
    ArrayList<ConnectionNodeParams> usedModuleInfos
    
    List of the modules which have been used in the data model- this should be the same as the PamController list but also saves the location of the module.
- Class dataModelFX.ModuleNodeParams
  
  class ModuleNodeParams extends UsedModuleInfo implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    connectionNodeType
    
    ConnectionNodeParams.PAMConnectionNodeType connectionNodeType
    
    Get the connection node type.
    
    id
    
    UUID id
    
    A unique ID for the connection node.
    
    layoutX
    
    double layoutX
    
    The x position of the connection node in the data model pane.
    
    layoutY
    
    double layoutY
    
    The y position of the connection node in the data model pane.
    
    prefHeight
    
    double prefHeight
    
    The preferred height of the module connection node.
    
    prefWidth
    
    double prefWidth
    
    The preferred width of the module connection node
    
    unitType
    
    String unitType
Package dataModelFX.structures
- Class dataModelFX.structures.PamGroupStructureParams
  
  class PamGroupStructureParams extends PamStructureParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    name
    
    String name
    
    The user defined name of the group structure.
    
    subNodeIDs
    
    UUID[] subNodeIDs
    
    The nodes within the group pane.
- Class dataModelFX.structures.PamStructureParams
  
  class PamStructureParams extends StructureParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    childNodes
    
    UUID[] childNodes
    
    The ID of the child nodes. Note there can be a sub node which is not connected to the group structure and thus is not a direct child node.
    
    parentNodes
    
    UUID[] parentNodes
    
    The ID of the parent structure the extension node was connected to.
- Class dataModelFX.structures.StructureParams
  
  class StructureParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    id
    
    UUID id
    
    layoutX
    
    double layoutX
    
    The X position of the node in it's connection pane.
    
    layoutY
    
    double layoutY
    
    The Y position of the node in it's connection pane.
Package dataPlots
- Class dataPlots.HidingControlPanel
  
  class HidingControlPanel extends PamPanel implements Serializable
  - Serialized Fields
    
    addGraph
    
    JButton addGraph
    
    graphButtons
    
    ArrayList<JButton> graphButtons
    
    graphOutPanel
    
    JPanel graphOutPanel
    
    graphPanel
    
    JPanel graphPanel
    
    popMenu
    
    JPopupMenu popMenu
    
    removeGraph
    
    JButton removeGraph
    
    tdControl
    
    TDControl tdControl
    
    vertical
    
    JCheckBox vertical
- Class dataPlots.TDPamScroller
  
  class TDPamScroller extends PamScroller implements Serializable
- Class dataPlots.TDParameters
  
  class TDParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    graphParameters
    
    ArrayList<GraphParameters> graphParameters
    
    orientation
    
    int orientation
    
    scrollableTimeRange
    
    long scrollableTimeRange
    
    scrollStartMillis
    
    long scrollStartMillis
    
    visibleTimeRange
    
    double visibleTimeRange
Package dataPlots.layout
- Class dataPlots.layout.CompoundHidingTabPane
  
  class CompoundHidingTabPane extends TabbedHidingPane implements Serializable
  
  serialVersionUID:
  
  1L
- Class dataPlots.layout.DataListInfo
  
  class DataListInfo extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    currentDataLine
    
    int currentDataLine
    
    isShowing
    
    boolean isShowing
    
    listSettings
    
    Serializable listSettings
    
    providerClass
    
    Class providerClass
    
    providerName
    
    String providerName
- Class dataPlots.layout.GraphParameters
  
  class GraphParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    autoScale
    
    boolean autoScale
    
    currentAxisName
    
    String currentAxisName
    
    dataListInfos
    
    ArrayList<DataListInfo> dataListInfos
- Class dataPlots.layout.TDGraph.GraphPlotPanel
  
  class GraphPlotPanel extends PamPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bufferedImage
    
    BufferedImage bufferedImage
    
    plotNumber
    
    int plotNumber
    
    rl
    
    long rl
Package dataPlotsFX
- Class dataPlotsFX.TDControlAWT.TDFXPanel
  
  class TDFXPanel extends javafx.embed.swing.JFXPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    tdMainDisplay
    
    TDDisplayFX tdMainDisplay
- Class dataPlotsFX.TDGraphParametersFX
  
  class TDGraphParametersFX extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    autoScale
    
    boolean autoScale
    
    Auto scale the axis.
    
    channels
    
    int[] channels
    
    Channel bitmap list. Channels which are plotted by each plot pane. If on plot pane that plot all channels then channels[0]=0;
    
    currentDataType
    
    DataTypeInfo currentDataType
    
    The current data type to show.
    
    dataListInfos
    
    ArrayList<DataListInfo> dataListInfos
    
    Allows TDDataInfo to be created when graph is initialised. Can't just have TDDataInfo here as a whole data block would end up being serialised (yes Americans, that is how you spell initialised and serialised).
    
    plotFillS
    
    String plotFillS
    
    Used only when saving as Color (javafx) is not serializable.
    
    popUpMenuType
    
    int popUpMenuType
    
    Flag which indicates what type of pop up menu to use;
    
    scaleInfoData
    
    Hashtable<String,TDScaleInfoData> scaleInfoData
    
    List of scale information for each scale type for the graph.
    
    showHidePaneLeft
    
    boolean showHidePaneLeft
    
    Show the hide panel on the left on start up. Note only used when first opening saved settings or saving settings.
    
    showHidePaneRight
    
    boolean showHidePaneRight
    
    Show the hide panel on the right on start up. Note only used when first opening saved settings or saving settings.
- Class dataPlotsFX.TDParametersFX
  
  class TDParametersFX extends Object implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    displayProviderParams
    
    UserDisplayNodeParams displayProviderParams
    
    Set of params which tell PG about the display.
    
    graphParameters
    
    ArrayList<TDGraphParametersFX> graphParameters
    
    A list of parameters for each tdGraph in the display
    
    orientation
    
    javafx.geometry.Orientation orientation
    
    Orientation of the graph, HORIZONTAL or VERTICAL
    
    overlayMarkerType
    
    int overlayMarkerType
    
    The type of overlay marker which is currently employed.
    
    scrollableTimeRange
    
    double scrollableTimeRange
    
    The number of milliseconds of scrollable data. This is basically the data that is stored in memory and can be scrolled through. DG. This was set at 5 minutes and would cause all panels to keep that much data, which caused out of memory errors with FFT data - which doesn't need to be kept in any case. Now fixed so it doesn't apply to fft data, so should be o to revert to 5minutes.
    
    scrollerDataGramIndex
    
    int scrollerDataGramIndex
    
    The index of the selected datragram in the acoustic sc roll bar.
    
    scrollStartMillis
    
    double scrollStartMillis
    
    The datenum in millis for the start of the time scroll bar.
    
    showControl
    
    boolean showControl
    
    Whether the control pane is showing or not.
    
    splitHeights
    
    double[] splitHeights
    
    Heights of split panes added to the display.
    
    startMillis
    
    double startMillis
    
    The start of the display;
    
    visibleTimeRange
    
    long visibleTimeRange
    
    The number of milliseconds displayed on the screen.
    
    wrap
    
    boolean wrap
    
    True to wrap the time display, false to scroll.
Package dataPlotsFX.clickPlotFX
- Class dataPlotsFX.clickPlotFX.ClickDisplayParams
  
  class ClickDisplayParams extends FFTPlotSettings implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    amplitudeRange
    
    double[] amplitudeRange
    
    The amplitude range
    
    bearingRange
    
    double[] bearingRange
    
    The bearing range.
    
    colourScheme
    
    int colourScheme
    
    The current colour scheme
    
    displayChannels
    
    int displayChannels
    
    Channel bitmap of channels to display.
    
    fftColor
    
    String fftColor
    
    Deprecated.
    
    Color of clicks on FFT
    
    fftCutOf
    
    double fftCutOf
    
    The cut off in energy at which a click FFT is not displayed. Represented as a % value 0-1;
    
    iciRange
    
    double[] iciRange
    
    The inter-click interval range
    
    maxClickHeight
    
    int maxClickHeight
    
    Max height of click in pixels.
    
    maxClickLength
    
    int maxClickLength
    
    Max length of click in pixels.
    
    minClickHeight
    
    int minClickHeight
    
    Min height of click in pixels.
    
    minClickLength
    
    int minClickLength
    
    Min length of click in pixels.
    
    slantRange
    
    double[] slantRange
    
    The slant angle
    
    thresholdFFT
    
    boolean thresholdFFT
    
    Plot FFT by threshold or by spectrogram if thge clicks are display on a frequency time axis.
Package dataPlotsFX.data
- Class dataPlotsFX.data.DataTypeInfo
  
  class DataTypeInfo extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataType
    
    GeneralProjector.ParameterType dataType
    
    Name of the data, e.g. accelerometer x; bearing; slant angle, etc.
    
    dataUnits
    
    GeneralProjector.ParameterUnits dataUnits
    
    Name of the data, e.g. accelerometer x; bearing; slant angle, etc.
- Class dataPlotsFX.data.TDDataListInfoFX
  
  class TDDataListInfoFX extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    currentDataLine
    
    int currentDataLine
    
    isShowing
    
    boolean isShowing
    
    listSettings
    
    Serializable listSettings
    
    providerClass
    
    Class<?> providerClass
    
    providerName
    
    String providerName
- Class dataPlotsFX.data.TDScaleInfoData
  
  class TDScaleInfoData extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    autoDivisor
    
    boolean autoDivisor
    
    Automatically calculate a divisor value for the data e.g. 1000 -> k 1000000 - M
    
    divisorString
    
    String divisorString
    
    String representation of the divisor, typically k (kilo) M (mega) etc.
    
    maxVal
    
    double maxVal
    
    The maxiumum value
    
    minVal
    
    double minVal
    
    The minimum value
    
    plotChannels
    
    int[] plotChannels
    
    The channels/sequences associated with different plots. If 0 then plot can plot all channels. If any other number then a plot can only plot those channels. Most of the time this will be unused, however for some case, e.g. spectrogram overlays it is necessary. as plotChannels[0] refers to channels for plot pane 0, plotChannels[1] for channels in plot pane 2 etc. It is assumed the user will not have a need for one display showing more than PamConstants.MAX_CHANNELS channels of data. Note that, depending on the source, this may hold either channels or sequence numbers. It is left to the user to be careful not to mix the two when selecting which PamDataBlocks to display on the same graph
    
    unitDivisor
    
    double unitDivisor
    
    Unit divisor for the display of units on graphs etc.
    
    visiblePlotChannels
    
    boolean[] visiblePlotChannels
    
    The visible channels. True to show a channel on the map and false to not show. The visiblePlotChannels is the same size and represents the same channels TDScaleInfoData.plotChannels
Package dataPlotsFX.rawClipDataPlot
- Class dataPlotsFX.rawClipDataPlot.RawClipParams
  
  class RawClipParams extends FFTPlotSettings implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    showSpectrogram
    
    boolean showSpectrogram
    
    True to show a spectrogram clip - otherwise frequency box.
    
    windowType
    
    int windowType
    
    The window type for the spectrogram
Package dataPlotsFX.scroller
- Class dataPlotsFX.scroller.TDAcousticScroller
  
  class TDAcousticScroller extends AcousticScrollerFX implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    allObservers
    
    ArrayList<dataPlotsFX.scroller.TDAcousticScroller.AcousticObserver> allObservers
    
    Need a list of all observers since every time a new data block is added, there is a call to checkDataBlockGraphics which subscribes AcousticObservers to all the source data. This results in many blocks being added many times. This list is used to delete all these observers just before they all get added again. Very inefficient, but will work well enough.
    
    currentAcousticObserver
    
    dataPlotsFX.scroller.TDAcousticScroller.AcousticObserver currentAcousticObserver
    
    dataSelectButton
    
    javafx.scene.control.MenuButton dataSelectButton
    
    The data selector button.
    
    flipPane
    
    FlipPane flipPane
    
    The flip pane.
    
    mainTDScrollPane
    
    PamBorderPane mainTDScrollPane
    
    Pane ot hold the scroll pane
    
    rawDataBlock
    
    PamDataBlock<RawDataUnit> rawDataBlock
    
    The current raw data block for the acoustic scroller.
    
    rawScrollBarGraphics
    
    RawScrollBarGraphics rawScrollBarGraphics
    
    Graphics for acoustic data.
    
    scrollerColourParams
    
    TDAcousticScrollerParams scrollerColourParams
    
    settingsHolder
    
    javafx.scene.layout.StackPane settingsHolder
    
    Stack pane.
    
    settingsPane
    
    TDScrollerSettingsPane settingsPane
    
    Settings pane for the scroller.
    
    spinner
    
    TimeRangeScrollSpinner spinner
    
    Spinner for changing the window size. i.e. how many seconds the windows shows.
    
    spinnerCall
    
    boolean spinnerCall
    
    tdDisplay
    
    TDDisplayFX tdDisplay
    
    The tdDisplay pane which holds this time scroller.
- Class dataPlotsFX.scroller.TDAcousticScrollerParams
  
  class TDAcousticScrollerParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    amplitudeLimits
    
    double[] amplitudeLimits
    
    The amplitude limits of the color scale.
    
    amplitudeMinMax
    
    double[] amplitudeMinMax
    
    The min and max allowed amplitude for the colour scale
    
    colourMap
    
    ColourArray.ColourArrayType colourMap
    
    Type of colour scheme for spectrogram.
    
    disableSpectrumPreview
    
    boolean disableSpectrumPreview
    
    Disables the spectrogram preview if true. Used to prevent long clunky load times, especially for high frequency data.
- Class dataPlotsFX.scroller.TDPamScrollerFX
  
  class TDPamScrollerFX extends PamScrollerFX implements Serializable
  - Serialized Fields
    
    scrollHolder
    
    PamBorderPane scrollHolder
    
    Holds the scroll bar and spinner.
    
    spinner
    
    TimeRangeScrollSpinner spinner
    
    Spinner for changing the window size. i.e. how many seconds the windows shows.
    
    tdDisplay
    
    TDDisplayFX tdDisplay
    
    The tdDisplay pane which holds this time scroller.
Package dataPlotsFX.scrollingPlot2D
- Class dataPlotsFX.scrollingPlot2D.PlotParams2D
  
  class PlotParams2D extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    amplitudeLimitsSerial
    
    double[] amplitudeLimitsSerial
    
    Amplitude limits- only used when serializing;
    
    colourMap
    
    ColourArray.ColourArrayType colourMap
    
    Type of colour scheme for spectrogram.
    
    maxAmplitudeLimits
    
    double[] maxAmplitudeLimits
    
    The maximum limits of the amplitude slider bar.
Package dataPlotsFX.spectrogramPlotFX
- Class dataPlotsFX.spectrogramPlotFX.SpectrogramParamsFX
  
  class SpectrogramParamsFX extends PlotParams2D implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    frequencyLimitsSerial
    
    double[] frequencyLimitsSerial
    
    Frequency limits- only used when serializing;
Package dbht
- Class dbht.DbHtDialog
  
  class DbHtDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    bodePlot
    
    dbht.DbHtDialog.BodePlot bodePlot
    
    bodePlotAxis
    
    dbht.DbHtDialog.BodePlotAxis bodePlotAxis
    
    currentSampleRate
    
    double currentSampleRate
    
    dbHtControl
    
    DbHtControl dbHtControl
    
    firArbfilter
    
    FIRArbitraryFilter firArbfilter
    
    params
    
    DbHtParameters params
    
    paramsPanel
    
    dbht.DbHtDialog.ParamsPanel paramsPanel
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    tapPlot
    
    dbht.DbHtDialog.TapPlot tapPlot
    
    tapPlotAxis
    
    dbht.DbHtDialog.TapPlotAxis tapPlotAxis
    
    tdModel
    
    dbht.DbHtDialog.ThresholdTableDataModel tdModel
    
    thresholdTable
    
    JTable thresholdTable
- Class dbht.DbHtDisplayDialog
  
  class DbHtDisplayDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    autoScale
    
    JCheckBox autoScale
    
    colourByChannel
    
    JCheckBox colourByChannel
    
    dbhtControl
    
    DbHtControl dbhtControl
    
    drawLines
    
    JCheckBox drawLines
    
    maxAmp
    
    JTextField maxAmp
    
    minAmp
    
    JTextField minAmp
    
    params
    
    DbHtDisplayParams params
    
    showGrid
    
    JCheckBox showGrid
    
    showMeasure
    
    JCheckBox[] showMeasure
    
    symbolSize
    
    JTextField symbolSize
- Class dbht.DbHtDisplayParams
  
  class DbHtDisplayParams extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    autoScale
    
    boolean autoScale
    
    colourByChannel
    
    boolean colourByChannel
    
    drawLine
    
    boolean drawLine
    
    maxAmplitude
    
    double maxAmplitude
    
    minAmplitude
    
    double minAmplitude
    
    showGrid
    
    boolean showGrid
    
    showWhat
    
    int showWhat
    
    symbolSize
    
    int symbolSize
    
    timeRange
    
    long timeRange
- Exception Class dbht.DbHtException
  
  class DbHtException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
- Class dbht.DbHtParameters
  
  class DbHtParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    Channel map for measurements.
    
    chebyGamma
    
    double chebyGamma
    
    Gamma for Chebychev window.
    
    dataSource
    
    String dataSource
    
    Data source name
    
    filterLogOrder
    
    int filterLogOrder
    
    log2 of the filter order (actual filter will probably be one less than this value).
    
    frequencyPoints
    
    double[] frequencyPoints
    
    Array of frequency points Must be same length as hearingThreshold
    
    hearingThreshold
    
    double[] hearingThreshold
    
    array of hearing threshold values. Must be same length as frequencyPoints
    
    lastImportFile
    
    File lastImportFile
    
    measurementInterval
    
    int measurementInterval
    
    Measurement interval in seconds.
Package dbht.alarm
- Class dbht.alarm.DbHtAlarmParameters
  
  class DbHtAlarmParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    returnedMeasure
    
    int returnedMeasure
- Class dbht.alarm.DbHtAlarmParamsDialog
  
  class DbHtAlarmParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    dbHtAlarmCounter
    
    DbHtAlarmCounter dbHtAlarmCounter
    
    dbHtAlarmParameters
    
    DbHtAlarmParameters dbHtAlarmParameters
    
    measures
    
    JRadioButton[] measures
Package dbht.offline
- Class dbht.offline.DbHtSummaryDialog
  
  class DbHtSummaryDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    dbHtSummaryParams
    
    DbHtSummaryParams dbHtSummaryParams
    
    exportInterval
    
    JTextField exportInterval
- Class dbht.offline.DbHtSummaryParams
  
  class DbHtSummaryParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    intervalSeconds
    
    int intervalSeconds
Package decimator
- Class decimator.DecimatorParams
  
  class DecimatorParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    filterParams
    
    FilterParams filterParams
    
    interpolation
    
    int interpolation
    
    newSampleRate
    
    float newSampleRate
    
    rawDataSource
    
    String rawDataSource
- Class decimator.DecimatorParamsDialog
  
  class DecimatorParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    decimatorControl
    
    DecimatorControl decimatorControl
    
    defaultFilterButton
    
    JButton defaultFilterButton
    
    filterButton
    
    JButton filterButton
    
    filterInfo
    
    JLabel filterInfo
    
    inputSampleRate
    
    float inputSampleRate
    
    interpolator
    
    JComboBox<String> interpolator
    
    isViewer
    
    boolean isViewer
    
    newSampleRate
    
    JTextField newSampleRate
    
    offlineDAQDialogPanel
    
    OfflineFileDialogPanel offlineDAQDialogPanel
    
    parentFrame
    
    Frame parentFrame
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    sourceSampleRate
    
    JLabel sourceSampleRate
Package depthReadout
- Class depthReadout.DepthDialog
  
  class DepthDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    depthControl
    
    DepthControl depthControl
    
    depthParameters
    
    DepthParameters depthParameters
    
    depthSystem
    
    DepthSystem depthSystem
    
    devicePanel
    
    depthReadout.DepthDialog.DevicePanel devicePanel
- Class depthReadout.DepthParameters
  
  class DepthParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    hydrophoneMaps
    
    int[] hydrophoneMaps
    
    This is actually a streamer map now, not hydrophones but leave it alone.
    
    hydrophoneY
    
    double[] hydrophoneY
    
    Deprecated.
    
    nSensors
    
    int nSensors
    
    pollTime
    
    double pollTime
    
    systemNumber
    
    int systemNumber
- Class depthReadout.MccDepthParameters
  
  class MccDepthParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    iBoard
    
    int iBoard
    
    board index, not MCC Number.
    
    mccSensorParameters
    
    MccDepthParameters.MccSensorParameters[] mccSensorParameters
    
    range
    
    int range
- Class depthReadout.MccDepthParameters.MccSensorParameters
  
  class MccSensorParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    iChan
    
    int iChan
    
    scaleA
    
    double scaleA
    
    Deth = scaleA * voltage + scaleB;
    
    scaleB
    
    double scaleB
- Class depthReadout.MccDialog
  
  class MccDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    boardPanel
    
    depthReadout.MccDialog.BoardPanel boardPanel
    
    depthControl
    
    DepthControl depthControl
    
    depthParameters
    
    DepthParameters depthParameters
    
    mccDepthParameters
    
    MccDepthParameters mccDepthParameters
    
    mccDepthSystem
    
    MccDepthSystem mccDepthSystem
    
    mccJniInterface
    
    MccJniInterface mccJniInterface
    
    sensorsPanel
    
    depthReadout.MccDialog.SensorsPanel sensorsPanel
Package detectiongrouplocaliser
- Class detectiongrouplocaliser.DetectionGroupSettings
  
  class DetectionGroupSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    annotationChoices
    
    AnnotationChoices annotationChoices
    
    autoCrossedBearings
    
    boolean autoCrossedBearings
    
    minCrossedBearings
    
    int minCrossedBearings
    
    offlineShowOption
    
    int offlineShowOption
    
    overlayMarkInfo
    
    Hashtable<String,OverlayMarkDataInfo> overlayMarkInfo
Package detectiongrouplocaliser.dialogs
- Class detectiongrouplocaliser.dialogs.DetectionGroupDialog
  
  class DetectionGroupDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    annotationHandler
    
    AnnotationChoiceHandler annotationHandler
    
    annotationPanel
    
    AnnotationsSelectionPanel annotationPanel
    
    dataSelector
    
    OverlaySwingPanel dataSelector
    
    detectionGroupControl
    
    DetectionGroupControl detectionGroupControl
    
    markProvidersPanel
    
    MarkProvidersPanel markProvidersPanel
    
    okPressed
    
    boolean okPressed
Package detectionPlotFX
- Class detectionPlotFX.DetectionPlotParams
  
  class DetectionPlotParams extends UserDisplayNodeParams implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    dataAxisMap
    
    HashMap<String,String> dataAxisMap
    
    Saves which data axis is used for which data block. The key is the data block long name and the result is the name of the plot e.g. waveform. In this way users can set how they want the data plots to display different types of data units and the dispay types are saved on PAMGuard opne and close.
    
    dataSource
    
    String dataSource
    
    The data source for the detection plot.
    
    showScrollBar
    
    boolean showScrollBar
    
    True to show the scroll bar.
Package detectionPlotFX.plots
- Class detectionPlotFX.plots.FFTPlotParams
  
  class FFTPlotParams extends Object implements Serializable
  
  serialVersionUID:
  
  4L
  - Serialized Fields
    
    colorArray
    
    ColourArray.ColourArrayType colorArray
    
    The colour array for the plot.
    
    detPadding
    
    long detPadding
    
    The padding to either side of the detection
    
    fftHop
    
    int fftHop
    
    The fft hop
    
    fftLength
    
    int fftLength
    
    The fft length
    
    freqAmplitudeLimits
    
    double[] freqAmplitudeLimits
    
    The minimum and maximum frequency amplitude limits that can be set using the colour bar
    
    freqAmplitudeRange
    
    double[] freqAmplitudeRange
    
    The range of amplitudes between which there is a colour scale
    
    normalise
    
    boolean normalise
    
    Normalise the FFFT's
    
    plotChannel
    
    int plotChannel
    
    The plot channel
    
    windowFunction
    
    int windowFunction
    
    The window function index.
- Class detectionPlotFX.plots.SpectrumPlotParams
  
  class SpectrumPlotParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelChoice
    
    int channelChoice
    
    logRange
    
    double logRange
    
    logScale
    
    boolean logScale
    
    plotCepstrum
    
    boolean plotCepstrum
    
    plotSmoothing
    
    int plotSmoothing
    
    showEventInfo
    
    boolean showEventInfo
    
    smoothPlot
    
    boolean smoothPlot
- Class detectionPlotFX.plots.WaveformPlotParams
  
  class WaveformPlotParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    invert
    
    boolean invert
    
    Invert the waveform
    
    maxLength
    
    double maxLength
    
    The length of the x scale.
    
    showFilteredWaveform
    
    boolean showFilteredWaveform
    
    View a filtered waveform.
    
    showSperateWaveform
    
    boolean showSperateWaveform
    
    Seperate waveform plots
    
    waveFixedXScale
    
    boolean waveFixedXScale
    
    Show a fixed x scale.
    
    waveformFilterParams
    
    FFTFilterParams waveformFilterParams
    
    Parameters for waveform filter.
    
    waveShowEnvelope
    
    boolean waveShowEnvelope
    
    Show the waveform plot
- Class detectionPlotFX.plots.WignerPlotParams
  
  class WignerPlotParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    chan
    
    Integer chan
    
    colorArray
    
    ColourArray.ColourArrayType colorArray
    
    The colour array of the wigner plot
    
    limitLength
    
    boolean limitLength
    
    manualLength
    
    int manualLength
    
    maxColourVal
    
    double maxColourVal
    
    The max colour value...i.e. the value of the wigner plot which be the extreme gradient of the colour aray.
    
    minColourVal
    
    double minColourVal
    
    The min colour value...i.e. the value of the wigner plot which be the extreme gradient of the colour aray.
Package detectionPlotFX.whistleDDPlot
- Class detectionPlotFX.whistleDDPlot.WhistlePlotParams
  
  class WhistlePlotParams extends FFTPlotParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    contourColor
    
    javafx.scene.paint.Color contourColor
Package difar
- Class difar.DifarParameters
  
  class DifarParameters extends Object implements Serializable
  
  serialVersionUID:
  
  10L
  - Serialized Fields
    
    amplitudeScaledLineLength
    
    boolean amplitudeScaledLineLength
    
    Auto scale line length depending on range
    
    amplitudeScaledOpacity
    
    boolean amplitudeScaledOpacity
    
    assignClassification
    
    boolean assignClassification
    
    Spectrogram marks will be assigned the selected classification in sidebar
    
    autoProcess
    
    boolean autoProcess
    
    whether to autoprocess vessel clips(now the only ones that can be)
    
    autoSaveAngleOnly
    
    boolean autoSaveAngleOnly
    
    when auto saving the difar result either the angle can be saved or the angle and range can be saved if it has range
    
    autoSaveDResult
    
    boolean autoSaveDResult
    
    autoSaveTime
    
    float autoSaveTime
    
    time afterwhich item has been sitting in difargram to autosave if no user interaction
    
    bearingLineWidth
    
    float bearingLineWidth
    
    calibrationChoice
    
    int calibrationChoice
    
    calibrationGpsSource
    
    String calibrationGpsSource
    
    clearProcessedDataAtStart
    
    boolean clearProcessedDataAtStart
    
    clearQueueAtStart
    
    boolean clearQueueAtStart
    
    cylindricalStartDistance
    
    double cylindricalStartDistance
    
    Distance travelled in surface duct, h0: 10*log(range) - 10*log(h0);
    
    defaultLength
    
    double defaultLength
    
    range in meters to dislpay on map
    
    deleteKey
    
    String deleteKey
    
    demuxType
    
    DifarParameters.DifarDemuxTypes demuxType
    
    difarFreqResponseFilterParams
    
    FilterParams difarFreqResponseFilterParams
    
    Stores paramaters to correct the frequency response for DIFAR buoys
    
    difarGramDividerPos
    
    Integer difarGramDividerPos
    
    vertical divider - possible between difargram and spectrogram
    
    favSpecies
    
    LookupItem[] favSpecies
    
    firstOrder
    
    DifarParameters.FirstOrders firstOrder
    
    groupList
    
    ArrayList<String> groupList
    
    hideVesselClips
    
    boolean hideVesselClips
    
    horizontalDividerPos
    
    Integer horizontalDividerPos
    
    used when the DIFARcontainers were joined - no longer
    
    keepRawDataTime
    
    int keepRawDataTime
    
    keep rawdata in rawdatablock for this amount of time may make this display dependant
    
    loadViewerClips
    
    boolean loadViewerClips
    
    maxSourceLevel
    
    double maxSourceLevel
    
    minimumOpacity
    
    int minimumOpacity
    
    multiChannelClips
    
    boolean multiChannelClips
    
    Spectrogram marks will generate clips from all channels instead of the one clicked on
    
    nextClassKey
    
    String nextClassKey
    
    nominalSourceLevel
    
    double nominalSourceLevel
    
    Nominal source level used to determine line lengths.
    
    nominalSpreading
    
    double nominalSpreading
    
    Nominal spreading, alpha: PL = alpha*Log(range);
    
    numberOfFavouriteWhales
    
    int numberOfFavouriteWhales
    
    not user configurable for now
    
    prevClassKey
    
    String prevClassKey
    
    processedDataKeepTime
    
    int processedDataKeepTime
    
    natural lifetime for the processed data datablock
    
    propLossModel
    
    int propLossModel
    
    Model to use for determining the length of a bearing line
    
    queuedDataKeepTime
    
    int queuedDataKeepTime
    
    natural lifetime for the queued data datablock-note there is also some control over this withing the clip generator history section of the hiding panel
    
    rawDataName
    
    String rawDataName
    
    name of unit to get raw data from including the frequency bands in which the multiplexed signals are within
    
    saveKey
    
    String saveKey
    
    saveWithoutCrossKey
    
    String saveWithoutCrossKey
    
    secondOrder
    
    DifarParameters.SecondOrders secondOrder
    
    secondsToPreceed
    
    double secondsToPreceed
    
    seconds to prepend to each clip to allow for signal locking of the demux algorithm
    
    selectedClassification
    
    LookupItem selectedClassification
    
    Automatically assign user-defined DIFAR classification when clicking on the Spectrogram
    
    showDifarGramFreqLimits
    
    boolean showDifarGramFreqLimits
    
    show detection limits on difargram - edited on right click
    
    showDifarGramKey
    
    boolean showDifarGramKey
    
    key on difargram - edited on right click
    
    showDifarGramSummary
    
    boolean showDifarGramSummary
    
    summary line - addition of amplitude/angle withing frequency bands on difargram - edited on right click
    
    showVesselBearings
    
    boolean showVesselBearings
    
    singleClickSave
    
    boolean singleClickSave
    
    save difargram when frequency/bearing selection is made
    
    Species
    
    LookupItem Species
    
    species to process a difarclip with. if null autoprocess dieabled
    
    speciesList
    
    LookupList speciesList
    
    List of species that can be selected for each DIFAR clip.
    
    speciesParams
    
    ArrayList<DifarParameters.SpeciesParams> speciesParams
    
    list of audio paramerters for processing difar clips - currently just vessel/whale but could be expanded for set for each species of whale
    
    timeScaledOpacity
    
    boolean timeScaledOpacity
    
    timeToFade
    
    long timeToFade
    
    check this compared with map show data time 30 min?
    
    triggerParams
    
    ArrayList<DifarParameters.DifarTriggerParams> triggerParams
    
    name of the detector module which can trigger difar clips to be made - eg whistle and moan detector currently limited to one detector
    
    useMaxSourceLevel
    
    boolean useMaxSourceLevel
    
    useSummaryLine
    
    boolean useSummaryLine
    
    If true use the average the energy across the classification frequency band in the difarGram, before picking the peak. Otherwise use the absolute maximum
    
    vesselClipLength
    
    int vesselClipLength
    
    vesselClipNumber
    
    int vesselClipNumber
    
    vesselClipSeparation
    
    int vesselClipSeparation
    
    zoomDifarFrequency
    
    boolean zoomDifarFrequency
- Class difar.DifarParameters.DifarTriggerParams
  
  class DifarTriggerParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelSelection
    
    int channelSelection
    
    Channel selection, all, first, one, etc.
    
    dataName
    
    String dataName
    
    Data name of the trigger data block.
    
    enable
    
    boolean enable
    
    Enabled
    
    speciesLookupItem
    
    LookupItem speciesLookupItem
    
    speciesName
    
    String speciesName
    
    Name of species for auto-processing, or Default to send to DIFARQueuePanel
- Class difar.DifarParameters.SpeciesParams
  
  class SpeciesParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    difarGramIntensityScaleFactor
    
    double difarGramIntensityScaleFactor
    
    This controls the contrast/intensity scale in the difarGram by setting a the floor of the difarGram (lowest value) to be equal to max(difarGram[][])/intensityScaleFactor. Lower values (ie. 2 to 10) will yield better contrast near the maximum of the difarSurface. 10invalid input: '<'inensityScaleFactorinvalid input: '<'10e5) will lower the floor and reduce the contrast near the peaks. A low value is recommended since the peaks are usually the features of interest in the difarGram.
    
    difarOutputType
    
    DifarParameters.DifarOutputTypes difarOutputType
    
    FFTHop
    
    int FFTHop
    
    FFTLength
    
    int FFTLength
    
    lookupItemName
    
    String lookupItemName
    
    nAngleSections
    
    int nAngleSections
    
    DifarGram Grid spacing
    
    processFreqMax
    
    float processFreqMax
    
    processFreqMin
    
    float processFreqMin
    
    sampleRate
    
    float sampleRate
    
    useDetectionLimitsForTriggeredDetections
    
    boolean useDetectionLimitsForTriggeredDetections
    
    for maons, use the max/min of the detection rather than the whale defaults
    
    useMarkedBandsForSpectrogramClips
    
    boolean useMarkedBandsForSpectrogramClips
Package difar.beamforming
- Class difar.beamforming.BeamformParameters
  
  class BeamformParameters extends Object implements Serializable
  
  serialVersionUID:
  
  10L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    difarFreqResponseFilterParams
    
    FilterParams difarFreqResponseFilterParams
    
    Stores paramaters to correct the frequency response for DIFAR buoys (not yet used)
    
    keepRawDataTime
    
    int keepRawDataTime
    
    keep rawdata in rawdatablock for this amount of time may make this display dependant
    
    noiseGpsSource
    
    String noiseGpsSource
    
    rawDataName
    
    String rawDataName
    
    name of unit to get raw data from including the frequency bands in which the multiplexed signals are within
    
    secondsToPreceed
    
    double secondsToPreceed
    
    seconds to prepend to each clip to allow for signal locking of the demux algorithm
    
    theta
    
    Double[] theta
    
    Steering angle of beamformer (theta)
    
    useGpsNoiseSource
    
    boolean useGpsNoiseSource
- Class difar.beamforming.BeamformParamsDialog
  
  class BeamformParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    beamformControl
    
    BeamformControl beamformControl
    
    beamformParameters
    
    BeamformParameters beamformParameters
    
    newSampleRate
    
    JLabel newSampleRate
    
    noiseGpsSource
    
    SourcePanel noiseGpsSource
    
    rawDataSource
    
    SourcePanel rawDataSource
    
    sampleRate
    
    float sampleRate
    
    sourceSampleRate
    
    JLabel sourceSampleRate
    
    useGpsNoiseSource
    
    JCheckBox useGpsNoiseSource

Package difar.calibration

Class difar.calibration.CalibrationDialog

class CalibrationDialog extends PamDialog implements Serializable

Serialized Fields

calCorrectionDisplay
```
HistogramDisplay calCorrectionDisplay
```

calCorrectionHistogram

CalibrationHistogram calCorrectionHistogram

calibrationProcess
```
CalibrationProcess calibrationProcess
```
channel
```
int channel
```
difarControl
```
DifarControl difarControl
```
draggedMouseValue
```
Double draggedMouseValue
```
progressText
```
PamTextDisplay progressText
```
saveButton
```
JButton saveButton
```
stopButton
```
JButton stopButton
```
trueBearingDisplay
```
HistogramDisplay trueBearingDisplay
```

trueBearingHistogram

CalibrationHistogram trueBearingHistogram

Package difar.dataSelector
- Class difar.dataSelector.DifarSelectParameters
  
  class DifarSelectParameters extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelEnabled
    
    boolean[] channelEnabled
    
    crossBearings
    
    boolean crossBearings
    
    maxFreq
    
    double maxFreq
    
    minAmplitude
    
    double minAmplitude
    
    minFreq
    
    double minFreq
    
    minLengthMillis
    
    double minLengthMillis
    
    numChannels
    
    int numChannels
    
    showOnlyCrossBearings
    
    boolean showOnlyCrossBearings
    
    speciesEnabled
    
    boolean[] speciesEnabled
    
    speciesList
    
    LookupList speciesList

Package difar.demux

Class difar.demux.GreenridgeParams

class GreenridgeParams extends Object implements Serializable

serialVersionUID:: 1L

Serialized Fields

dlpf
```
String dlpf
```
dlpfVals
```
double[] dlpfVals
```
drip
```
String drip
```
dripVals
```
double[] dripVals
```
exePath
```
String exePath
```
F_win
```
double F_win
```
Fn_acquire
```
double Fn_acquire
```
Fn_track
```
double Fn_track
```
Lock_hys_15
```
double Lock_hys_15
```
Lock_hys_75
```
double Lock_hys_75
```
Lock_threshold_15
```
double Lock_threshold_15
```
Lock_threshold_75
```
double Lock_threshold_75
```
Tagc_15
```
double Tagc_15
```
Tagc_75
```
double Tagc_75
```
Tau_lock_15
```
double Tau_lock_15
```
Tau_lock_75
```
double Tau_lock_75
```
tempDir
```
String tempDir
```
Tint_15
```
double Tint_15
```
Zeta_acquire
```
double Zeta_acquire
```
Zeta_track
```
double Zeta_track
```

Package difar.dialogs

Class difar.dialogs.DifarDisplayParamsDialog

class DifarDisplayParamsDialog extends PamDialog implements Serializable

Serialized Fields

amplitudeScaledLineLength
```
JCheckBox amplitudeScaledLineLength
```
cylindricalRange
```
JRadioButton cylindricalRange
```
cylindricalStartDistance
```
JTextField cylindricalStartDistance
```
defaultLength
```
JTextField defaultLength
```
difarControl
```
DifarControl difarControl
```
difarParameters
```
DifarParameters difarParameters
```
fixedRange
```
JRadioButton fixedRange
```
geometricRange
```
JRadioButton geometricRange
```
lineWidth
```
JTextField lineWidth
```
maxSourceLevel
```
JTextField maxSourceLevel
```
minimumOpacity
```
JTextField minimumOpacity
```
rangeType
```
ButtonGroup rangeType
```
showVessels
```
JCheckBox showVessels
```
sourceLevel
```
JTextField sourceLevel
```
spreadingFactor
```
JTextField spreadingFactor
```
timeScaledOpacity
```
JCheckBox timeScaledOpacity
```
timeToFade
```
JTextField timeToFade
```
useMaxSourceLevel
```
JCheckBox useMaxSourceLevel
```

Class difar.dialogs.DifarParamsDialog

class DifarParamsDialog extends PamDialog implements Serializable

Serialized Fields

advancedPanel
```
JPanel advancedPanel
```

audioPanels

difar.dialogs.DifarParamsDialog.AudioPanel[] audioPanels

automationPanel
```
JPanel automationPanel
```
autoProcess
```
JCheckBox autoProcess
```
autoSaveAngleOnly
```
JCheckBox autoSaveAngleOnly
```
autoSaveDResult
```
JCheckBox autoSaveDResult
```
autoSaveTime
```
JTextField autoSaveTime
```
calibrationSourcePanel
```
SourcePanel calibrationSourcePanel
```
clearProcessedDataAtStart
```
JCheckBox clearProcessedDataAtStart
```
clearQueueAtStart
```
JCheckBox clearQueueAtStart
```
defaultItem
```
Object defaultItem
```
deleteTextField
```
JTextField deleteTextField
```

demuxType

JComboBox<DifarParameters.DifarDemuxTypes> demuxType

difarControl
```
DifarControl difarControl
```
difarParameters
```
DifarParameters difarParameters
```
favSpecies
```
JComboBox[] favSpecies
```
favSpeciesPanel
```
JPanel favSpeciesPanel
```
firstOrder
```
JComboBox firstOrder
```
keepRawDataTime
```
JTextField keepRawDataTime
```

keyboardShortcutPanel

difar.dialogs.DifarParamsDialog.KeyboardShortcutPanel keyboardShortcutPanel

loadViewerClips
```
JCheckBox loadViewerClips
```
nextClassTextField
```
JTextField nextClassTextField
```
noAutoItem
```
Object noAutoItem
```
nullItem
```
Object nullItem
```
prevClassTextField
```
JTextField prevClassTextField
```
processedDataKeepTime
```
JTextField processedDataKeepTime
```
queuedDataKeepTime
```
JTextField queuedDataKeepTime
```
rawDataSource
```
SourcePanel rawDataSource
```
saveTextField
```
JTextField saveTextField
```
saveWithoutCrossTextField
```
JTextField saveWithoutCrossTextField
```
secondOrder
```
JComboBox secondOrder
```
secondsToPreceed
```
JTextField secondsToPreceed
```

triggerPanel

DifarParamsDialog.DifarDetectorPanel triggerPanel

triggerSource
```
SourcePanel triggerSource
```
useSummaryLine
```
JCheckBox useSummaryLine
```

vesselPanel

difar.dialogs.DifarParamsDialog.DifarVesselPanel vesselPanel

Class difar.dialogs.DifarParamsDialog.DifarDetectorPanel

class DifarDetectorPanel extends PamPanel implements Serializable
- Serialized Fields
  - acousticDataBlocks
    
    ArrayList<PamDataBlock> acousticDataBlocks
  - dataLabels
    
    JLabel[] dataLabels
  - enableBoxes
    
    JCheckBox[] enableBoxes
  - settingsButtons
    
    JButton[] settingsButtons
  - speciesLookups
    
    JComboBox[] speciesLookups
  - triggerParams
    
    DifarParameters.DifarTriggerParams[] triggerParams

Class difar.dialogs.SonobuoyDialog

class SonobuoyDialog extends StreamerDialog implements Serializable

Serialized Fields

action
```
PamTextField action
```
addonPanel
```
PamBorderPanel addonPanel
```
buoyManager
```
SonobuoyManager buoyManager
```
calibration
```
PamTextField calibration
```
calStdDev
```
PamTextField calStdDev
```
deployTime
```
PamTextField deployTime
```
difarControl
```
DifarControl difarControl
```
endTime
```
PamTextField endTime
```
streamerDataUnit
```
StreamerDataUnit streamerDataUnit
```

Package difar.display
- Class difar.display.DIFARGroupPanel
  
  class DIFARGroupPanel extends PamPanel implements Serializable
  - Serialized Fields
    
    addGroup
    
    PamButton addGroup
    
    controlPanel
    
    PamPanel controlPanel
    
    difarControl
    
    DifarControl difarControl
    
    groupNameDialog
    
    difar.display.DIFARGroupPanel.GroupNameDialog groupNameDialog
    
    listModel
    
    DefaultListModel<String> listModel
    
    removeGroup
    
    PamButton removeGroup
    
    trackedGroup
    
    JList trackedGroup
- Class difar.display.DisplayNorthPanel
  
  class DisplayNorthPanel extends PamPanel implements Serializable
- Class difar.display.DisplaySouthPanel
  
  class DisplaySouthPanel extends PamPanel implements Serializable
- Class difar.display.SonobuoyManagerPanel
  
  class SonobuoyManagerPanel extends PamPanel implements Serializable
  - Serialized Fields
    
    buoyManager
    
    SonobuoyManager buoyManager
    
    calibrationPanel
    
    PamPanel calibrationPanel
    
    calibrationTable
    
    CalibrationTableView calibrationTable
    
    difarControl
    
    DifarControl difarControl
    
    mainPanel
    
    PamPanel mainPanel
    
    scrollPane
    
    PamScrollPane scrollPane
    
    sonobuoyTable
    
    PamTable sonobuoyTable
Package effortmonitor
- Class effortmonitor.EffortParams
  
  class EffortParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    outserScrollOnly
    
    boolean outserScrollOnly
    
    Only log outer scroll events when paging forwards, not every little movement.
    
    recentObjectives
    
    LinkedList<String> recentObjectives
    
    recentObservers
    
    LinkedList<String> recentObservers
Package effortmonitor.swing
- Class effortmonitor.swing.EffortDialog
  
  class EffortDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    allActions
    
    JRadioButton allActions
    
    effortControl
    
    EffortControl effortControl
    
    effortParams
    
    EffortParams effortParams
    
    objective
    
    DBTextArea objective
    
    observer
    
    JComboBox<String> observer
    
    oldObjectives
    
    JComboBox<String> oldObjectives
    
    outerOnly
    
    JRadioButton outerOnly
Package envelopeTracer
- Class envelopeTracer.EnvelopeDialog
  
  class EnvelopeDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    envelopeParams
    
    EnvelopeParams envelopeParams
    
    logOutput
    
    JCheckBox logOutput
    
    outputSampleRate
    
    JTextField outputSampleRate
    
    postFilterButton
    
    JButton postFilterButton
    
    postFilterText
    
    JLabel postFilterText
    
    preFilterButton
    
    JButton preFilterButton
    
    preFilterText
    
    JLabel preFilterText
    
    sampleRate
    
    float sampleRate
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class envelopeTracer.EnvelopeParams
  
  class EnvelopeParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    dataSourceName
    
    String dataSourceName
    
    filterSelect
    
    FilterParams filterSelect
    
    logScale
    
    boolean logScale
    
    outputSampleRate
    
    float outputSampleRate
    
    postFilterParams
    
    FilterParams postFilterParams
Package export
- Class export.ExportParams
  
  class ExportParams extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    exportChoice
    
    int exportChoice
    
    The index of the export choice.
    
    folder
    
    String folder
    
    The folder to save to.
    
    maximumFileSize
    
    Double maximumFileSize
    
    The maximum file size in Megabytes
Package export.wavExport
- Class export.wavExport.WavExportOptions
  
  class WavExportOptions extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    wavSaveChoice
    
    int wavSaveChoice
    
    Flag to indicate how to save files
- Class export.wavExport.WavOptionsPanel
  
  class WavOptionsPanel extends PamPanel implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    indvidualWav
    
    JRadioButton indvidualWav
    
    noZeroPad
    
    JRadioButton noZeroPad
    
    zeroPad
    
    JRadioButton zeroPad
Package fftFilter
- Class fftFilter.FFTFilterDialog
  
  class FFTFilterDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    bandPass
    
    JRadioButton bandPass
    
    bandStop
    
    JRadioButton bandStop
    
    fftFilterParams
    
    FFTFilterParams fftFilterParams
    
    highPass
    
    JRadioButton highPass
    
    highPassFreq
    
    JTextField highPassFreq
    
    lowPass
    
    JRadioButton lowPass
    
    lowPassFreq
    
    JTextField lowPassFreq
    
    sampleRate
    
    double sampleRate
- Class fftFilter.FFTFilterParams
  
  class FFTFilterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    filterBand
    
    FilterBand filterBand
    
    highPassFreq
    
    double highPassFreq
    
    lowPassFreq
    
    double lowPassFreq
Package fftManager
- Class fftManager.Complex
  
  class Complex extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    imag
    
    double imag
    
    real
    
    double real
- Class fftManager.FFTDataDisplayOptions
  
  class FFTDataDisplayOptions extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxVal
    
    double maxVal
    
    minVal
    
    double minVal
    
    plottedChannels
    
    int plottedChannels
    
    Channel (or Sequence) map to plot
    
    smoothingFactor
    
    int smoothingFactor
    
    useSpecValues
    
    boolean useSpecValues
- Class fftManager.FFTLengthModel
  
  class FFTLengthModel extends AbstractSpinnerModel implements Serializable
  - Serialized Fields
    
    host
    
    FFTLengthModeled host
    
    newVal
    
    int newVal
- Class fftManager.FFTParameters
  
  class FFTParameters extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    clickPower
    
    int clickPower
    
    clickRemoval
    
    boolean clickRemoval
    
    clickThreshold
    
    double clickThreshold
    
    dataSource
    
    int dataSource
    
    dataSourceName
    
    String dataSourceName
    
    fftHop
    
    int fftHop
    
    fftLength
    
    int fftLength
    
    name
    
    String name
    
    spectrogramNoiseSettings
    
    SpectrogramNoiseSettings spectrogramNoiseSettings
    
    windowFunction
    
    int windowFunction
- Class fftManager.FFTParametersDialog
  
  class FFTParametersDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    clickPower
    
    JTextField clickPower
    
    clickRemoval
    
    JCheckBox clickRemoval
    
    clickRemoveMessage
    
    String clickRemoveMessage
    
    clickThreshold
    
    JTextField clickThreshold
    
    defaultOverlap
    
    JButton defaultOverlap
    
    fftHopData
    
    JTextField fftHopData
    
    fftLengthData
    
    JTextField fftLengthData
    
    fftLengthModel
    
    FFTLengthModel fftLengthModel
    
    fftLengthSpinner
    
    JSpinner fftLengthSpinner
    
    fftParameters
    
    FFTParameters fftParameters
    
    paramsChanged
    
    boolean paramsChanged
    
    resolutionPanel
    
    ResolutionPanel resolutionPanel
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    spectrogramNoiseDialogPanel
    
    SpectrogramNoiseDialogPanel spectrogramNoiseDialogPanel
    
    tabbedPane
    
    JTabbedPane tabbedPane
    
    windowFunction
    
    JComboBox windowFunction
- Class fftManager.FFTPluginParamsDialog
  
  class FFTPluginParamsDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelCheckBoxes
    
    JCheckBox[] channelCheckBoxes
    
    checkBoxPanel
    
    JPanel checkBoxPanel
    
    maxValTextField
    
    JTextField maxValTextField
    
    minValTextField
    
    JTextField minValTextField
    
    nameTextField
    
    JTextField nameTextField
    
    p
    
    JPanel p
    
    plotOptions
    
    FFTDataDisplayOptions plotOptions
    
    pluginPanel
    
    FFTPluginPanelProvider.FFTPluginPanel pluginPanel
    
    smoothingFactorTextField
    
    JTextField smoothingFactorTextField
    
    t
    
    JPanel t
    
    usedChannelList
    
    int[] usedChannelList
    
    useSpecValues
    
    JCheckBox useSpecValues
    
    valuesPanel
    
    JPanel valuesPanel
Package fftManager.fftorganiser
- Exception Class fftManager.fftorganiser.FFTDataException
  
  class FFTDataException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package fileOfflineData
- Class fileOfflineData.OfflineFileMapPoint
  
  class OfflineFileMapPoint extends OfflineDataMapPoint implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataFile
    
    File dataFile
- Class fileOfflineData.OfflineFileParams
  
  class OfflineFileParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    offlineFolder
    
    String offlineFolder
    
    subFolders
    
    boolean subFolders
- Class fileOfflineData.OfflineFileProgressDialog
  
  class OfflineFileProgressDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    progress
    
    JProgressBar progress
    
    progressText
    
    JLabel progressText
- Class fileOfflineData.OfflineFilesDialog
  
  class OfflineFilesDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    d3Params
    
    OfflineFileParams d3Params
    
    selectFolder
    
    SelectFolder selectFolder
    
    sensorControl
    
    OfflineFileControl sensorControl
Package Filters
- Class Filters.FilterDataSourceDialog
  
  class FilterDataSourceDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    outputDataBlock
    
    PamDataBlock outputDataBlock
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class Filters.FilterDialog
  
  class FilterDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    filterDialogPanel
    
    FilterDialogPanel filterDialogPanel
- Class Filters.FilterParameters_2
  
  class FilterParameters_2 extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelBitmap
    
    int channelBitmap
    
    filterParams
    
    FilterParams filterParams
    
    rawDataSource
    
    String rawDataSource
- Class Filters.FilterParams
  
  class FilterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    arbFreqs
    
    double[] arbFreqs
    
    arbGains
    
    double[] arbGains
    
    centreFreq
    
    double centreFreq
    
    Centre frequency for band pass filters. This is really only used with the filter designs forANSI standard filters used in the noise module.
    
    chebyGamma
    
    double chebyGamma
    
    filterBand
    
    FilterBand filterBand
    
    filterOrder
    
    int filterOrder
    
    filterType
    
    FilterType filterType
    
    highPassFreq
    
    float highPassFreq
    
    lastImportFile
    
    File lastImportFile
    
    Some extras for arbitrary filters.
    
    lowPassFreq
    
    float lowPassFreq
    
    passBandRipple
    
    double passBandRipple
    
    scaleType
    
    int scaleType
    
    Scale type just used for drawing dialog
    
    stopBandRipple
    
    double stopBandRipple
Package generalDatabase
- Class generalDatabase.DatabaseSpeedDialog
  
  class DatabaseSpeedDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    colItem
    
    PamTableItem[] colItem
    
    countItem
    
    PamTableItem countItem
    
    lastIndex
    
    JTextField lastIndex
    
    lastTime
    
    JTextField lastTime
    
    nWrites
    
    JTextField nWrites
    
    prevIndex
    
    PamTableItem prevIndex
    
    speedWorker
    
    generalDatabase.DatabaseSpeedDialog.SpeedWorker speedWorker
    
    tableDef
    
    PamTableDefinition tableDef
    
    timeItem
    
    PamTableItem timeItem
- Class generalDatabase.DBDialog
  
  class DBDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    dbControl
    
    DBControl dbControl
    
    dbParameters
    
    DBParameters dbParameters
    
    dialogBottomPanel
    
    JPanel dialogBottomPanel
    
    systemDialogPanel
    
    SystemDialogPanel systemDialogPanel
    
    systemList
    
    JComboBox systemList
    
    useAutoCommit
    
    JCheckBox useAutoCommit
- Class generalDatabase.DBMapMakingDialog
  
  class DBMapMakingDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    databaseName
    
    JLabel databaseName
    
    streamName
    
    JLabel streamName
    
    streamProgress
    
    JProgressBar streamProgress
- Class generalDatabase.DBOfflineDataMapPoint
  
  class DBOfflineDataMapPoint extends OfflineDataMapPoint implements Serializable
  - Serialized Fields
    
    highestUID
    
    Long highestUID
    
    lowestUId
    
    Long lowestUId
- Class generalDatabase.DBParameters
  
  class DBParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    databaseName
    
    String databaseName
    
    This is only added so that it appears in the XML parameter set, so has a setter, but no getter.
    
    databaseSystem
    
    int databaseSystem
    
    useAutoCommit
    
    Boolean useAutoCommit
- Class generalDatabase.MySQLParameters
  
  class MySQLParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    databaseName
    
    String databaseName
    
    ipAddress
    
    String ipAddress
    
    passWord
    
    String passWord
    
    portNumber
    
    int portNumber
    
    userName
    
    String userName
- Class generalDatabase.UTCTimestamp
  
  class UTCTimestamp extends Timestamp implements Serializable
  
  serialVersionUID:
  
  1L
Package generalDatabase.backup
- Class generalDatabase.backup.DatabaseBackupSettings
  
  class DatabaseBackupSettings extends BackupSettings implements Serializable
  
  serialVersionUID:
  
  1L
Package generalDatabase.clauses
- Class generalDatabase.clauses.FixedClause
  
  class FixedClause extends PamViewParameters implements Serializable
  - Serialized Fields
    
    clause
    
    String clause
- Class generalDatabase.clauses.UIDViewParameters
  
  class UIDViewParameters extends PamViewParameters implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    clause
    
    String clause
Package generalDatabase.dataExport
- Class generalDatabase.dataExport.DataExportDialog
  
  class DataExportDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    cancelled
    
    boolean cancelled
    
    dataFilters
    
    ArrayList<DataFilter> dataFilters
    
    dataTable
    
    JTable dataTable
    
    exportSystem
    
    DataExportSystem exportSystem
    
    filterClause
    
    JLabel filterClause
    
    pamConnection
    
    PamConnection pamConnection
    
    tableCursor
    
    PamCursor tableCursor
    
    tableCursorRows
    
    int tableCursorRows
    
    tableDefinition
    
    EmptyTableDefinition tableDefinition
    
    tableModel
    
    generalDatabase.dataExport.DataExportDialog.ExportTableModel tableModel
    
    visibleTableItems
    
    ArrayList<PamTableItem> visibleTableItems
- Class generalDatabase.dataExport.DoubleValueParams
  
  class DoubleValueParams extends ValueFilterParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxValue
    
    double maxValue
    
    minValue
    
    double minValue
- Class generalDatabase.dataExport.IntValueParams
  
  class IntValueParams extends ValueFilterParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxValue
    
    int maxValue
    
    minValue
    
    int minValue
- Class generalDatabase.dataExport.TimeValueParams
  
  class TimeValueParams extends ValueFilterParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxValue
    
    long maxValue
    
    minValue
    
    long minValue
- Class generalDatabase.dataExport.ValueFilterDialog
  
  class ValueFilterDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    maxValue
    
    JTextField maxValue
    
    minValue
    
    JTextField minValue
    
    useMax
    
    JCheckBox useMax
    
    useMin
    
    JCheckBox useMin
    
    valueFilterParams
    
    ValueFilterParams valueFilterParams
- Class generalDatabase.dataExport.ValueFilterParams
  
  class ValueFilterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    useMax
    
    boolean useMax
    
    useMin
    
    boolean useMin

Package generalDatabase.external

Class generalDatabase.external.CopyDialog

class CopyDialog extends PamDialog implements Serializable

Serialized Fields

carryOn
```
boolean carryOn
```
copyDirection
```
CopyTypes copyDirection
```
copyManager
```
CopyManager copyManager
```
copySettings
```
JCheckBox copySettings
```
currentTable
```
JLabel currentTable
```
destDatabase
```
DBControl destDatabase
```
externalDatabase
```
DBControl externalDatabase
```
generalStatus
```
CopyStatus generalStatus
```
importOptions
```
JComboBox<ImportOption>[] importOptions
```
infoLabel
```
JLabel infoLabel
```
infoSynch
```
Object infoSynch
```
initialChecksComplete
```
boolean initialChecksComplete
```
nTables
```
int nTables
```
sourceDatabase
```
DBControl sourceDatabase
```
startButton
```
JButton startButton
```
tableDSTRecords
```
JLabel[] tableDSTRecords
```
tableInfo
```
List<TableInformation> tableInfo
```
tableNEWRecords
```
JLabel[] tableNEWRecords
```
tableProgress
```
JProgressBar tableProgress
```
tableSRCRecords
```
JLabel[] tableSRCRecords
```
totalProgress
```
JProgressBar totalProgress
```

Package generalDatabase.lookupTables
- Class generalDatabase.lookupTables.LookupEditDialog
  
  class LookupEditDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    addButton
    
    JButton addButton
    
    colNames
    
    String[] colNames
    
    deleteButton
    
    JButton deleteButton
    
    downButton
    
    JButton downButton
    
    lookupList
    
    LookupList lookupList
    
    lookUpTables
    
    LookUpTables lookUpTables
    
    lutTable
    
    JTable lutTable
    
    lutTableDataModel
    
    generalDatabase.lookupTables.LookupEditDialog.LUTTableDataModel lutTableDataModel
    
    upButton
    
    JButton upButton
- Class generalDatabase.lookupTables.LookupItem
  
  class LookupItem extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    borderColour
    
    Color borderColour
    
    code
    
    String code
    
    databaseId
    
    int databaseId
    
    fillColour
    
    Color fillColour
    
    order
    
    int order
    
    resultSetRow
    
    int resultSetRow
    
    selectable
    
    boolean selectable
    
    symbolType
    
    String symbolType
    
    text
    
    String text
    
    topic
    
    String topic
- Class generalDatabase.lookupTables.LookupList
  
  class LookupList extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    deletedItems
    
    Vector<LookupItem> deletedItems
    
    listTopic
    
    String listTopic
    
    lutList
    
    Vector<LookupItem> lutList
Package generalDatabase.sqlite
- Class generalDatabase.sqlite.SQLiteParameters
  
  class SQLiteParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    databaseName
    
    String databaseName
    
    recentDatabases
    
    ArrayList<File> recentDatabases
Package gpl
- Class gpl.GPLParameters
  
  class GPLParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    backgroundTimeSecs
    
    double backgroundTimeSecs
    
    Time constant for background whitener and also for blocking of data.
    
    blockParams
    
    PamBlockParams blockParams
    
    Params controlling blocking of data
    
    connectType
    
    GPLParameters.ConnectType connectType
    
    Type of contour connector: 4 = sides only, 8 = sides and diagonals.
    
    contourCut
    
    double contourCut
    
    cut in HT. Threshold for contour detection.
    
    contourMerge
    
    ContourMerge contourMerge
    
    What to do with multiple contour patches within a single 'detection'
    
    description
    
    String description
    
    Generic description for this parameter set used by the default parameters list. .
    
    fftSourceName
    
    String fftSourceName
    
    Data source name (FFT or beam former data)
    
    importFile
    
    String importFile
    
    Name of a file settings were imported from. Easiest to keep this separate from the freeform text.
    
    keepNullContours
    
    boolean keepNullContours
    
    Keep GPL detections even if they don't have any detected contours.
    
    maxCallLengthSeconds
    
    double maxCallLengthSeconds
    
    Used to select a peak from the detector. Would this be better used on individual contours ?
    
    maxFreq
    
    double maxFreq
    
    As minFreq above.
    
    minCallLengthSeconds
    
    double minCallLengthSeconds
    
    Used to select a peak from the detector. Would this be better used on individual contours ?
    
    minContourArea
    
    int minContourArea
    
    Min contour area to be kept. fixed value of 10 in HT
    
    minFreq
    
    double minFreq
    
    Minimum frequency for analysis. Currently used both in whitener and contour detector. If allowing multiple bands, may have to separate this for the different bands.
    
    minPeakGap
    
    int minPeakGap
    
    Minimum gap between peaks in the detector.
    
    noise_ceiling
    
    double noise_ceiling
    
    This is possibly better thought of as a 'low threshold', final detector finds regions that go above this, but only accepts them as detections if at least a bin goes above the higher 'thresh' value.
    
    sequenceMap
    
    int sequenceMap
    
    Channel / sequence map for processing (might replace this with full detection grouping ?)
    
    thresh
    
    double thresh
    
    See above. Main detection threshold .
    
    white_fac_x
    
    double white_fac_x
    
    Whitening factor for first whitening over backgroundTimeSecs duration of data. Used in Base3xWhitener and is a scaling factor used to increase the mean subtracted from the spectrogram, i.e. if X is the spectrogram and mu is the mean value of the spectrogram, then the white spectrogram is X-white_fac_x*mu. In Matlab code this is the 'fac' passed to whiten_matrix in GPL_whiten.
    So far as I can see, this doesn't appear in H et al. If it did, it would scale the mu term in equations 17 and 18.
    
    xp1
    
    double xp1
    
    This is nu1 in H et al. eq 6. Used as xp1 in Matlab GPL_Quiet. This is the scale factor that will emphasise tonal signals.
    Note that in code the spec is raised to this power to calculate bas, but then it all get's squared again to make baseline0, so this is nu1, not 2nu1.
    
    xp2
    
    double xp2
    
    This is nu2 in H et al. eq 6. Used as xp1 in Matlab GPL_Quiet. This is the scale factor that will emphasise broad band transients.
    Note that in code the spec is raised to this power to calculate bas, but then it all get's squared again to make baseline0, so this is nu1, not 2nu1.
Package gpl.contour
- Class gpl.contour.GPLContourPoint
  
  class GPLContourPoint extends Point implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    signalExcess
    
    double signalExcess
    
    totalEnergy
    
    double totalEnergy

Package gpl.dialog

Class gpl.dialog.GPLDialog

class GPLDialog extends PamDialog implements Serializable

Serialized Fields

blockComboBox
```
EnumComboBox blockComboBox
```
connect4
```
JRadioButton connect4
```
connect8
```
JRadioButton connect8
```
contourArea
```
JTextField contourArea
```
contourCut
```
JTextField contourCut
```
contourMerge
```
EnumComboBox contourMerge
```
description
```
JTextArea description
```
fftResPanel
```
ResolutionPanel fftResPanel
```
gplControlledUnit
```
GPLControlledUnit gplControlledUnit
```
gplParams
```
GPLParameters gplParams
```
helpPoint
```
String helpPoint
```
importFile
```
JTextField importFile
```
lab_contourCut
```
FixedLabel lab_contourCut
```
lab_maxLength
```
JLabel lab_maxLength
```
lab_minGap
```
JLabel lab_minGap
```
lab_minlength
```
JLabel lab_minlength
```
lab_noise_ceil
```
JLabel lab_noise_ceil
```
lab_thresh
```
JLabel lab_thresh
```
lab_xp1
```
JLabel lab_xp1
```
lab_xp2
```
JLabel lab_xp2
```
maxFreq
```
JTextField maxFreq
```
maxFreqBin
```
JLabel maxFreqBin
```
maxLength
```
JTextField maxLength
```
minFreq
```
JTextField minFreq
```
minFreqBin
```
JLabel minFreqBin
```
minGap
```
JTextField minGap
```
minLength
```
JTextField minLength
```
noise_ceil
```
JTextField noise_ceil
```
nullContours
```
JCheckBox nullContours
```
sourcePanel
```
SourcePanel sourcePanel
```
thresh
```
JTextField thresh
```
whiteFactor
```
JTextField whiteFactor
```
whiteTime
```
JTextField whiteTime
```
xp1
```
JTextField xp1
```
xp2
```
JTextField xp2
```

Package GPS
- Class GPS.GpsData
  
  class GpsData extends LatLong implements Serializable
  
  serialVersionUID:
  
  -7919081673367069167L
  - Serialized Fields
    
    courseOverGround
    
    double courseOverGround
    
    renamed from heading
    
    dataOk
    
    boolean dataOk
    
    date
    
    int date
    
    day
    
    int day
    
    distanceFromLast
    
    double distanceFromLast
    
    fixType
    
    String fixType
    
    Fix type is supported by newer GPS units which have an additional three fields after the date - Magnetic variation, E/W indicator and 'Mode' = A=Autonomous, D=DGPS, E=DR, N = Output Data Not Valid The GGA string has a similar position fix indicator:
    0 Fix not available or invalid
    1 GPS SPS Mode, fix valid
    2 Differential GPS, SPS Mode, fix valid
    3-5 Not supported
    6 Dead Reckoning Mode, fix valid
    
    gpsCalendar
    
    Calendar gpsCalendar
    
    hours
    
    int hours
    
    magneticHeading
    
    Double magneticHeading
    
    magneticVariation
    
    Double magneticVariation
    
    millis
    
    int millis
    
    mins
    
    int mins
    
    month
    
    int month
    
    pitch
    
    Double pitch
    
    hydrophone pitch in degrees.
    
    roll
    
    Double roll
    
    hydrophone roll in degrees.
    
    secs
    
    int secs
    
    speed
    
    double speed
    
    time
    
    int time
    
    timeInMillis
    
    long timeInMillis
    
    trueHeading
    
    Double trueHeading
    
    renamed from trueCourse
    
    year
    
    int year
- Class GPS.GPSParameters
  
  class GPSParameters extends Object implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    allowWildcard
    
    boolean allowWildcard
    
    courseInterval
    
    double courseInterval
    
    Minimum course change for a dynamic read
    
    dimA
    
    double dimA
    
    distance from bow to antenna
    
    dimB
    
    double dimB
    
    distance from antenna to stern
    
    dimC
    
    double dimC
    
    distance from port side to antenna
    
    dimD
    
    double dimD
    
    distance from antenna to starboard side
    
    ggaInitials
    
    String ggaInitials
    
    headingNMEASource
    
    String headingNMEASource
    
    headingSmoothing
    
    boolean headingSmoothing
    
    GPS HEading Smoothing
    
    headingString
    
    String headingString
    
    String for true heading
    
    headingStringPos
    
    int headingStringPos
    
    position of data in headingString
    
    mainString
    
    int mainString
    
    Which strings to read
    
    nmeaSource
    
    String nmeaSource
    
    plotPredictedPosition
    
    boolean plotPredictedPosition
    
    On the map, work out where the ship will be and draw an arrow to that point
    
    predictionTime
    
    int predictionTime
    
    time for prediction arrow (seconds)
    
    readHeading
    
    boolean readHeading
    
    readInterval
    
    int readInterval
    
    Interval between reads in seconds
    
    readTrueHeading
    
    boolean readTrueHeading
    
    Attempt to read true heading information
    
    readType
    
    int readType
    
    storage and read options: Can either read everything that comes in or just read every n seconds, or be a bit more clever and read every n seconds OR whenever course or speed have changed by more than than some set amount.
    
    rmcInitials
    
    String rmcInitials
    
    String initials
    
    setClockOnStartup
    
    boolean setClockOnStartup
    
    smoothingFlag
    
    boolean smoothingFlag
    
    Flag indicating whether or not to smooth the GPS data
    
    smoothingTime
    
    float smoothingTime
    
    GPS smoothing time in seconds.
    
    speedInterval
    
    double speedInterval
    
    Minimum speed change for a dynamic read
- Class GPS.GPSParametersDialog
  
  class GPSParametersDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    fieldNames
    
    String[] fieldNames
    
    gpsParameters
    
    GPSParameters gpsParameters
    
    headingPanel
    
    GPS.GPSParametersDialog.HeadingPanel headingPanel
    
    mainStringPanel
    
    GPS.GPSParametersDialog.MainStringPanel mainStringPanel
    
    predictPanel
    
    GPS.GPSParametersDialog.PredictPanel predictPanel
    
    readOptions
    
    GPS.GPSParametersDialog.ReadOptions readOptions
    
    shipDimensionsFields
    
    ShipDimensionsFields shipDimensionsFields
    
    shipDrawing
    
    ShipDimensionsPanel shipDrawing
    
    smoothingOptions
    
    GPS.GPSParametersDialog.SmoothingOptions smoothingOptions
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class GPS.ImportGGADialog
  
  class ImportGGADialog extends PamDialog implements Serializable
  - Serialized Fields
    
    checkBox
    
    JCheckBox checkBox
    
    day
    
    JTextField day
    
    frame
    
    Window frame
    
    importGPSData
    
    ImportGPSData importGPSData
    
    month
    
    JTextField month
    
    params
    
    ImportGPSParams params
    
    year
    
    JTextField year
- Class GPS.ImportGPSDialog
  
  class ImportGPSDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    browseButton
    
    JButton browseButton
    
    fileList
    
    JComboBox<String> fileList
    
    frame
    
    Window frame
    
    importGPSData
    
    ImportGPSData importGPSData
    
    params
    
    ImportGPSParams params
- Class GPS.ImportGPSParams
  
  class ImportGPSParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    day
    
    int day
    
    month
    
    int month
    
    path
    
    ArrayList<String> path
    
    useGGA
    
    boolean useGGA
    
    year
    
    int year
- Class GPS.ShipDimensionsDrawing
  
  class ShipDimensionsDrawing extends JPanel implements Serializable
  - Serialized Fields
    
    antennaPos
    
    Point antennaPos
    
    arrowHead
    
    int arrowHead
    
    bow
    
    double bow
    
    relA
    
    double relA
    
    relB
    
    double relB
    
    relC
    
    double relC
    
    relD
    
    double relD
    
    scale
    
    int scale
- Class GPS.ShipDimensionsFields
  
  class ShipDimensionsFields extends JPanel implements Serializable
  - Serialized Fields
    
    dimNames
    
    String[] dimNames
    
    shipDims
    
    JTextField[] shipDims
- Class GPS.ShipDimensionsPanel
  
  class ShipDimensionsPanel extends JPanel implements Serializable
- Class GPS.UpdateClockDialog
  
  class UpdateClockDialog extends JDialog implements Serializable
  - Serialized Fields
    
    autoUpdate
    
    boolean autoUpdate
    
    cancelButton
    
    JButton cancelButton
    
    gpsControl
    
    GPSControl gpsControl
    
    gpsTime
    
    JTextField gpsTime
    
    newDataCount
    
    int newDataCount
    
    nmeaCalendar
    
    Calendar nmeaCalendar
    
    pcTime
    
    JTextField pcTime
    
    setAlways
    
    JCheckBox setAlways
    
    setButton
    
    JButton setButton
    
    setOnNextString
    
    boolean setOnNextString
    
    timer
    
    Timer timer
Package group3dlocaliser
- Class group3dlocaliser.Group3DParams
  
  class Group3DParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algorithmName
    
    String algorithmName
    
    algorithmSpecificParams
    
    Hashtable<String,LocaliserAlgorithmParams> algorithmSpecificParams
    
    grouperParams
    
    DetectionGrouperParams grouperParams
    
    sourceName
    
    String sourceName
Package group3dlocaliser.algorithm
- Class group3dlocaliser.algorithm.LocaliserAlgorithmParams
  
  class LocaliserAlgorithmParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algorithmParameters
    
    Serializable algorithmParameters
    
    xtraSourceParameters
    
    Serializable xtraSourceParameters
Package group3dlocaliser.algorithm.gridsearch
- Class group3dlocaliser.algorithm.gridsearch.MFPGridSearchParams
  
  class MFPGridSearchParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    fftLength
    
    int fftLength
- Class group3dlocaliser.algorithm.gridsearch.TOADGridParams
  
  class TOADGridParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    gridCentre
    
    PamVector gridCentre
    
    Grid centre relative to array centre (more important for spherical / cylindrical grids)
    
    gridType
    
    String gridType
Package group3dlocaliser.algorithm.hyperbolic
- Class group3dlocaliser.algorithm.hyperbolic.HyperbolicParams
  
  class HyperbolicParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bootStrapN
    
    int bootStrapN
    
    Number of iterations to calculate error. More=more computational time per localisation;
    
    calcErrors
    
    boolean calcErrors
    
    Calculates errors from a random distribution of time delay errors
Package group3dlocaliser.algorithm.toadbase
- Class group3dlocaliser.algorithm.toadbase.TOADBaseParams
  
  class TOADBaseParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelBitmap
    
    int channelBitmap
    
    minCorrelatedGroups
    
    int minCorrelatedGroups
    
    Minimum number of channel groups that have at least one acceptable correlation value in them.
    
    minCorrelation
    
    double minCorrelation
    
    Minimum cross correlation value within a channel pair for it to be used in localisation
    
    minTimeDelays
    
    int minTimeDelays
    
    Minimum number of time delays that have an acceptable correlation value
Package group3dlocaliser.algorithm.toadmimplex
- Class group3dlocaliser.algorithm.toadmimplex.MimplexParams
  
  class MimplexParams extends MCMCParams2 implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    useFirstCombination
    
    boolean useFirstCombination
    
    Always use the first combination
Package group3dlocaliser.dataselector
- Class group3dlocaliser.dataselector.Group3DDataSelectParams
  
  class Group3DDataSelectParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    maxChi2
    
    double maxChi2
    
    maxError
    
    double maxError
    
    minDF
    
    int minDF
Package group3dlocaliser.grids
- Class group3dlocaliser.grids.SphericalGridParams
  
  class SphericalGridParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    angleStep
    
    double angleStep
    
    Angle step in degrees
    
    logRangeScale
    
    boolean logRangeScale
    
    nRanges
    
    int nRanges
    
    rangeRange
    
    double[] rangeRange
Package group3dlocaliser.grouper
- Class group3dlocaliser.grouper.DetectionGrouperParams
  
  class DetectionGrouperParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataSelectMinimum
    
    int dataSelectMinimum
    
    dataSelectOption
    
    int dataSelectOption
    
    groupingChoice
    
    int groupingChoice
    
    maxPerGroup
    
    int maxPerGroup
    
    maxPerSubGroup
    
    int maxPerSubGroup
    
    minSubGroups
    
    int minSubGroups
    
    primaryDetGroup
    
    int[] primaryDetGroup
    
    The primary detection groups. The slected detection groups must be included in the combination for a loclaisation null means there is no primary group.
Package hfDaqCard
- Class hfDaqCard.SmruDaqParameters
  
  class SmruDaqParameters extends SoundCardParameters implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelFilterIndex
    
    int[] channelFilterIndex
    
    channelGainIndex
    
    int[] channelGainIndex
    
    channelMask
    
    int channelMask
    
    sampleRateIndex
    
    int sampleRateIndex
Package IMU
- Class IMU.IMUCalibrationDialog
  
  class IMUCalibrationDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    frame
    
    Window frame
    
    heading
    
    JTextField heading
    
    params
    
    IMUParams params
    
    pitch
    
    JTextField pitch
    
    tilt
    
    JTextField tilt
- Class IMU.IMUImportDialog
  
  class IMUImportDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    comboBox
    
    JComboBox<String> comboBox
    
    importCSVB
    
    JButton importCSVB
    
    importCSVMethod
    
    IMUImportMananger importCSVMethod
    
    imuControl
    
    IMUControl imuControl
    
    imuParams
    
    IMUParams imuParams
- Class IMU.IMUSettingsDialog
  
  class IMUSettingsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    imuParams
    
    IMUParams imuParams
    
    methodGroup
    
    ButtonGroup methodGroup
    
    panel
    
    PamPanel panel

Package ishmaelComms

Class ishmaelComms.Client

class Client extends JFrame implements Serializable

Serialized Fields

ambig
```
int ambig
```
angle
```
float angle
```
bearoffset
```
int bearoffset
```
bin
```
BufferedReader bin
```
cmndlist
```
String[] cmndlist
```
command
```
int command
```
datestr
```
String datestr
```
displayArea
```
JTextArea displayArea
```
end
```
float end
```
field
```
String[] field
```
GPS
```
boolean GPS
```
hifreq
```
float hifreq
```
i
```
int i
```
in
```
InputStream in
```
input
```
String input
```
isr
```
InputStreamReader isr
```
j
```
int j
```
key
```
String key
```
locdim
```
int locdim
```
lofreq
```
float lofreq
```
method
```
String method
```
n
```
int n
```
ni
```
int ni
```
NUMCMNDS
```
int NUMCMNDS
```
NUMFIELDS
```
int NUMFIELDS
```
numphones
```
int numphones
```
NUMPHONES
```
int NUMPHONES
```
out
```
OutputStream out
```
Pamdiscflag
```
boolean Pamdiscflag
```
PamSock
```
Socket PamSock
```
phonedim
```
int phonedim
```
PHONEDIM
```
int PHONEDIM
```
phonelocs
```
float[][] phonelocs
```
posoffset
```
int posoffset
```
pout
```
PrintWriter pout
```
quality
```
int quality
```
serverIP
```
String serverIP
```
showlocflag
```
boolean showlocflag
```
sockaddr
```
SocketAddress sockaddr
```
speed
```
float speed
```
start
```
float start
```
tag_cert
```
String tag_cert
```
timestr
```
String timestr
```
word
```
String word
```
xpos
```
float xpos
```
ypos
```
float ypos
```
zpos
```
float zpos
```

Package IshmaelDetector
- Class IshmaelDetector.EnergySumParams
  
  class EnergySumParams extends IshDetParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    adaptiveThreshold
    
    boolean adaptiveThreshold
    
    Use an averaging window adaptive noise floor.
    
    dontUpgrade
    
    boolean dontUpgrade
    
    Upgrade flag - use to test whether the deserialized settings object has the new fields. Set it to true now. If the object is from an old psf, then the field will be created with a default value of false.
    
    f0
    
    double f0
    
    f1
    
    double f1
    
    longFilter
    
    double longFilter
    
    The averaging value/damping factor for the adaptive noise floor.
    
    outPutSmoothing
    
    boolean outPutSmoothing
    
    Smooth the detector output
    
    ratiof0
    
    double ratiof0
    
    ratiof1
    
    double ratiof1
    
    shortFilter
    
    Double shortFilter
    
    The averaging value/damping factor for detector output. .
    
    spikeDecay
    
    double spikeDecay
    
    If there is a loud short sound then the adaptive noise filter will take along time to decay back to normal. If the result reaches spikeDecay*the current energy then a noise exponentially decays
    
    useLog
    
    boolean useLog
    
    Use a dB scale to calculate peaks
    
    useRatio
    
    boolean useRatio
- Class IshmaelDetector.EnergySumParamsDialog
  
  class EnergySumParamsDialog extends IshDetParamsDialog implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    f0Data
    
    JTextField f0Data
    
    f1Data
    
    JTextField f1Data
    
    logCheckBox
    
    JCheckBox logCheckBox
    
    ratioF0Data
    
    JTextField ratioF0Data
    
    ratioF1Data
    
    JTextField ratioF1Data
- Class IshmaelDetector.IshDetParams
  
  class IshDetParams extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    channelList
    
    int channelList
    
    Deprecated.
    
    groupedSourceParmas
    
    GroupedSourceParameters groupedSourceParmas
    
    Holds the parent data block, channel selections and grouping.
    
    inputDataSource
    
    String inputDataSource
    
    Deprecated.
    
    The input data source- string name of the datablock
    
    maxTime
    
    double maxTime
    
    The maximum time allowed over threshold in seconds. If zero then the max time is not used.
    
    minTime
    
    double minTime
    
    The time required over a threshold before a pam data unit is saved (seconds)
    
    name
    
    String name
    
    Deprecated.
    
    refractoryTime
    
    double refractoryTime
    
    Minimum time until next detection (seconds)
    
    smoothing
    
    double smoothing
    
    Smoothing of detection data in seconds.
    
    thresh
    
    double thresh
    
    vscale
    
    double vscale
    
    Deprecated.
- Class IshmaelDetector.IshDetParamsDialog
  
  class IshDetParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    ishDetParams
    
    IshDetParams ishDetParams
    
    minTimeData
    
    JTextField minTimeData
    
    refractoryTimeData
    
    JTextField refractoryTimeData
    
    sourcePanel
    
    GroupedSourcePanel sourcePanel
    
    threshData
    
    JTextField threshData
    
    vsData
    
    JTextField vsData
- Class IshmaelDetector.IshDisplayDialog
  
  class IshDisplayDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    checkBoxAuto
    
    JCheckBox checkBoxAuto
    
    Check box for auto scaling.
    
    ishDisplayParams
    
    IshDisplayParams ishDisplayParams
    
    The display parameters.
    
    verticalScaleFactor
    
    JTextField verticalScaleFactor
    
    Text field for the vertical scale factor.
- Class IshmaelDetector.IshDisplayParams
  
  class IshDisplayParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    autoScale
    
    boolean autoScale
    
    Indicates whether the Ishmael spectrogram plugin autoscales.
    
    verticalScaleFactor
    
    double verticalScaleFactor
    
    The veretical scaling factor
- Class IshmaelDetector.MatchFiltParams
  
  class MatchFiltParams extends IshDetParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    kernelFilenameList
    
    ArrayList<String> kernelFilenameList
    
    This is a list of file names that the user has picked recently. The 0th element of it is the matched filter kernel; later items are there only to make it easy for the user to re-pick them.
- Class IshmaelDetector.MatchFiltParamsDialog
  
  class MatchFiltParamsDialog extends IshDetParamsDialog implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    kernelFileButton
    
    JButton kernelFileButton
    
    kernelFilenameBox
    
    JComboBox kernelFilenameBox
- Class IshmaelDetector.SgramCorrParams
  
  class SgramCorrParams extends IshDetParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    segment
    
    double[][] segment
    
    spread
    
    double spread
    
    useLog
    
    boolean useLog
- Class IshmaelDetector.SgramCorrParamsDialog
  
  class SgramCorrParamsDialog extends IshDetParamsDialog implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    linePanel
    
    JPanel linePanel
    
    logCheckBox
    
    JCheckBox logCheckBox
    
    segmentData
    
    JTextField[][] segmentData
    
    widthData
    
    JTextField widthData
Package IshmaelLocator
- Class IshmaelLocator.IshLocHyperbParams
  
  class IshLocHyperbParams extends IshLocParams implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    nDimensions
    
    int nDimensions
- Class IshmaelLocator.IshLocHyperbParamsDialog
  
  class IshLocHyperbParamsDialog extends IshLocParamsDialog implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    nDimsData
    
    JTextField nDimsData
- Class IshmaelLocator.IshLocParams
  
  class IshLocParams extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    channelList
    
    int channelList
    
    inputDataSource
    
    String inputDataSource
    
    name
    
    String name
    
    tAfter
    
    double tAfter
    
    tBefore
    
    double tBefore
    
    useDetector
    
    boolean useDetector
- Class IshmaelLocator.IshLocParamsDialog
  
  class IshLocParamsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    detectorCheckBox
    
    JCheckBox detectorCheckBox
    
    ishLocParams
    
    IshLocParams ishLocParams
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    tAfterData
    
    JTextField tAfterData
    
    tBeforeData
    
    JTextField tBeforeData
Package JSSHTerminal
- Class JSSHTerminal.GraphicTerminal
  
  class GraphicTerminal extends TerminalEvent implements Serializable
  - Serialized Fields
    
    charSet0
    
    BufferedImage charSet0
    
    charSetA
    
    BufferedImage charSetA
    
    charSetB
    
    BufferedImage charSetB
    
    identityTr
    
    AffineTransform identityTr
    
    lastBg
    
    int lastBg
    
    lastCharSet
    
    int lastCharSet
    
    lastChx
    
    int lastChx
    
    lastChy
    
    int lastChy
    
    lastFg
    
    int lastFg
    
    screen
    
    BufferedImage screen
    
    tmpBuffer
    
    int[] tmpBuffer
    
    tmpImg
    
    BufferedImage tmpImg
    
    tmpImgG
    
    Graphics tmpImgG
- Class JSSHTerminal.MainPanel
  
  class MainPanel extends JPanel implements Serializable
  - Serialized Fields
    
    _host
    
    String _host
    
    _password
    
    String _password
    
    _user
    
    String _user
    
    command
    
    String command
    
    contentPanel
    
    JPanel contentPanel
    
    exitOnClose
    
    boolean exitOnClose
    
    parentFrame
    
    JFrame parentFrame
    
    scrollBar
    
    JScrollBar scrollBar
    
    scrollUpdate
    
    boolean scrollUpdate
    
    session
    
    SSHSession session
    
    textArea
    
    TerminalEvent textArea
- Class JSSHTerminal.MultiTerminal
  
  class MultiTerminal extends JFrame implements Serializable
  - Serialized Fields
    
    commandLabel
    
    JLabel commandLabel
    
    commandText
    
    JTextField commandText
    
    connectBtn
    
    JButton connectBtn
    
    hostList
    
    JTextArea hostList
    
    hostListScroll
    
    JScrollPane hostListScroll
    
    innerPanel
    
    JPanel innerPanel
    
    loadButton
    
    JButton loadButton
    
    passwordLabel
    
    JLabel passwordLabel
    
    passwordText
    
    JTextField passwordText
    
    prefCommand
    
    String prefCommand
    
    prefHostList
    
    String prefHostList
    
    prefLastDir
    
    String prefLastDir
    
    prefPassword
    
    String prefPassword
    
    prefs
    
    Preferences prefs
    
    prefTermDim
    
    String prefTermDim
    
    prefUser
    
    String prefUser
    
    termDimLabel
    
    JLabel termDimLabel
    
    termDimText
    
    JTextField termDimText
    
    userLabel
    
    JLabel userLabel
    
    userText
    
    JTextField userText
- Class JSSHTerminal.TerminalEvent
  
  class TerminalEvent extends JComponent implements Serializable
  - Serialized Fields
    
    _parent
    
    MainPanel _parent
    
    charHeight
    
    int charHeight
    
    charWidth
    
    int charWidth
    
    cursorBackground
    
    Color cursorBackground
    
    endSel
    
    MouseEvent endSel
    
    isDragging
    
    boolean isDragging
    
    scrollPos
    
    int scrollPos
    
    session
    
    SSHSession session
    
    size
    
    Dimension size
    
    startSel
    
    MouseEvent startSel
    
    termHeight
    
    int termHeight
    
    terminal
    
    TerminalEmulator terminal
    
    termWidth
    
    int termWidth
- Class JSSHTerminal.TextTerminal
  
  class TextTerminal extends TerminalEvent implements Serializable
  - Serialized Fields
    
    charBuffer
    
    char[] charBuffer
    
    fontAscent
    
    int fontAscent
Package KernelSmoothing
- Class KernelSmoothing.KernelSmoothingDialog
  
  class KernelSmoothingDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    cancelButton
    
    JButton cancelButton
    
    okButton
    
    JButton okButton
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class KernelSmoothing.KernelSmoothingParameters
  
  class KernelSmoothingParameters extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    channelList
    
    int channelList
    
    fftBlockIndex
    
    int fftBlockIndex
Package landMarks
- Class landMarks.LandmarkData
  
  class LandmarkData extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    height
    
    double height
    
    latLong
    
    LatLong latLong
    
    name
    
    String name
    
    symbol
    
    PamSymbol symbol
- Class landMarks.LandmarkDatas
  
  class LandmarkDatas extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    data
    
    ArrayList<LandmarkData> data
    
    linkToDatabase
    
    boolean linkToDatabase
    
    tableName
    
    String tableName
- Class landMarks.LandmarkDialog
  
  class LandmarkDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    height
    
    JTextField height
    
    landmarkControl
    
    LandmarkControl landmarkControl
    
    landmarkData
    
    LandmarkData landmarkData
    
    latStrip
    
    LatLongDialogStrip latStrip
    
    longStrip
    
    LatLongDialogStrip longStrip
    
    name
    
    JTextField name
    
    pamSymbolSelector
    
    PamSymbolSelector pamSymbolSelector
- Class landMarks.LandmarksDialog
  
  class LandmarksDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    addButton
    
    JButton addButton
    
    dbImport
    
    JButton dbImport
    
    deleteButton
    
    JButton deleteButton
    
    editbutton
    
    JButton editbutton
    
    landmarkControl
    
    LandmarkControl landmarkControl
    
    landmarkDataModel
    
    landMarks.LandmarksDialog.LandmarkDataModel landmarkDataModel
    
    landmarkDatas
    
    LandmarkDatas landmarkDatas
    
    parentFrame
    
    Window parentFrame
    
    table
    
    JTable table
    
    tableName
    
    JTextField tableName
Package Layout
- Class Layout.PamAxisPanel
  
  class PamAxisPanel extends JPanel implements Serializable
  - Serialized Fields
    
    autoInsets
    
    boolean autoInsets
    
    border
    
    Border border
    
    dualDisplay
    
    boolean dualDisplay
    
    Boolean indicating whether or not the axisPanel holds a dual display. A dual-display frame has 2 plot panels beside each other (left and right). The plot panels typically share a common vertical axis. Default to false so that existing classes don't get screwed up. UNTESTED - use at your own risk
    
    eastAxis
    
    PamAxis eastAxis
    
    axis to be displayed on any or all of the four sides of a plot window (innerPanel below)
    
    innerPanel
    
    JPanel innerPanel
    
    The main plot panel that the axis are drawn around.
    
    leftPlotPanel
    
    JComponent leftPlotPanel
    
    Define the left plot panel for a dual-display. A dual-display frame has 2 plot panels beside each other (left and right). The plot panels typically share a common vertical axis. UNTESTED - use at your own risk
    
    minEast
    
    int minEast
    
    minNorth
    
    int minNorth
    
    minSouth
    
    int minSouth
    
    minWest
    
    int minWest
    
    northAxis
    
    PamAxis northAxis
    
    axis to be displayed on any or all of the four sides of a plot window (innerPanel below)
    
    plotPanel
    
    JComponent plotPanel
    
    If the plot panel contains border components such as a scroll bar, then the axis may need to be drawn relative to a slightly different panel. Plot panel is basically a component of innerPanel and if it is not null, axis will be drawn outside the inner panel, but lined up with the plotPanel.
    
    rightPlotPanel
    
    JComponent rightPlotPanel
    
    Define the right plot panel for a dual-display. A dual-display frame has 2 plot panels beside each other (left and right). The plot panels typically share a common vertical axis. UNTESTED - use at your own risk
    
    southAxis
    
    PamAxis southAxis
    
    axis to be displayed on any or all of the four sides of a plot window (innerPanel below)
    
    titleLabel
    
    JLabel titleLabel
    
    westAxis
    
    PamAxis westAxis
    
    axis to be displayed on any or all of the four sides of a plot window (innerPanel below)
- Class Layout.PamInternalFrame
  
  class PamInternalFrame extends JInternalFrame implements Serializable
  - Serialized Fields
    
    emptyBorder
    
    EmptyBorder emptyBorder
    
    framePlots
    
    PamFramePlots framePlots
    
    graphLayout
    
    PamGraphLayout graphLayout
    
    lastSize
    
    Dimension lastSize
Package levelMeter
- Class levelMeter.LevelMeterDialog
  
  class LevelMeterDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    levelMeterControl
    
    LevelMeterControl levelMeterControl
    
    levelMeterParams
    
    LevelMeterParams levelMeterParams
    
    peak
    
    JRadioButton peak
    
    rms
    
    JRadioButton rms
    
    scaleRange
    
    JTextField scaleRange
    
    scaleReference
    
    JComboBox<String> scaleReference
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class levelMeter.LevelMeterParams
  
  class LevelMeterParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    dataName
    
    String dataName
    
    minLevel
    
    int minLevel
    
    scaleReference
    
    int scaleReference
    
    scaleType
    
    int scaleType
Package likelihoodDetectionModule
- Class likelihoodDetectionModule.AcquisitionSettings
  
  class AcquisitionSettings extends Object implements Serializable
  
  serialVersionUID:
  
  34462L
  - Serialized Fields
    
    maxBandwidthHz
    
    double maxBandwidthHz
    
    The maximum bandwidth of the data source.
    
    minBandwidthHz
    
    double minBandwidthHz
    
    The minimum bandwidth of the data source.
    
    numberChannels
    
    int numberChannels
    
    The number of channels in the audio data.
    
    preampGainDb
    
    double preampGainDb
    
    The preamplifier gain of the audio data.
    
    samplingRateHz
    
    float samplingRateHz
    
    The sampling rate of the audio data.
    
    sourceName
    
    String sourceName
    
    The name of the acquisition source module.
    
    sourceNumber
    
    int sourceNumber
    
    The number assigned to the source module by the pamguard controller.
    
    voltageRange
    
    double voltageRange
    
    The peak-to-peak voltage range of the audio data.
- Class likelihoodDetectionModule.CheckRenderer
  
  class CheckRenderer extends JPanel implements Serializable
  
  serialVersionUID:
  
  24323L
  - Serialized Fields
    
    checkBox
    
    JCheckBox checkBox
    
    The check box.
    
    label
    
    CheckRenderer.TreeLabel label
    
    The label.
    
    model
    
    TreeModel model
    
    The model.
    
    nodeName
    
    String nodeName
    
    The node name.
    
    showCheckbox
    
    boolean showCheckbox
    
    The show checkbox.
- Class likelihoodDetectionModule.CheckRenderer.TreeLabel
  
  class TreeLabel extends JLabel implements Serializable
  
  serialVersionUID:
  
  902734L
  - Serialized Fields
    
    hasFocus
    
    boolean hasFocus
    
    The has focus.
    
    isSelected
    
    boolean isSelected
    
    The is selected.
- Class likelihoodDetectionModule.ConfigurationDialogSettings
  
  class ConfigurationDialogSettings extends Object implements Serializable
  
  serialVersionUID:
  
  234123L
  - Serialized Fields
    
    expandedState
    
    String expandedState
    
    The expanded state.
    
    firstColumnWidth
    
    int firstColumnWidth
    
    The first column width.
    
    secondColumnWidth
    
    int secondColumnWidth
    
    The second column width.
- Class likelihoodDetectionModule.GuardBand
  
  class GuardBand extends Object implements Serializable
  
  serialVersionUID:
  
  561L
  - Serialized Fields
    
    associatedSignalBandIdentifier
    
    String associatedSignalBandIdentifier
    
    The identifier of the signal band that this guard band should be associated with.
    
    backgroundSeconds
    
    double backgroundSeconds
    
    The background seconds.
    
    endFrequencyHz
    
    double endFrequencyHz
    
    The end frequency hz.
    
    frequencyLimits
    
    double[] frequencyLimits
    
    The frequency's limits.
    
    identifier
    
    String identifier
    
    The identifier of this guard band. The configuration dialog should ensure that this value is unique for a TargetConfiguration
    
    secondsLimits
    
    double[] secondsLimits
    
    The seconds' limits.
    
    signalSeconds
    
    double signalSeconds
    
    The signal seconds.
    
    startFrequencyHz
    
    double startFrequencyHz
    
    The start frequency hz.
- Class likelihoodDetectionModule.LikelihoodDetectionParameters
  
  class LikelihoodDetectionParameters extends Object implements Serializable
  
  serialVersionUID:
  
  555L
  - Serialized Fields
    
    acquisitionSettings
    
    AcquisitionSettings acquisitionSettings
    
    The acquisition settings (the audio data source).
    
    configurationDialogSettings
    
    ConfigurationDialogSettings configurationDialogSettings
    
    The configuration dialog settings. These are non-processing related values that are used in managing the display and layout of the module's configuration dialog - and it's nice to have them persistent between program executions.
    
    selectedChannels
    
    int selectedChannels
    
    The selected channels from the audio data source.
    
    targetConfigurations
    
    ArrayList<TargetConfiguration> targetConfigurations
    
    The target configurations that have been configured for the module. This is made public just to make life a little easier. It isn't expected that encapsulation of this member is necessary.
- Class likelihoodDetectionModule.LikelihoodDetectionParametersDialog
  
  class LikelihoodDetectionParametersDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  559L
  - Serialized Fields
    
    accepted
    
    boolean accepted
    
    The accepted state of the dialog (i.e., whether OK has been selected).
    
    likelihoodParameters
    
    LikelihoodDetectionParameters likelihoodParameters
    
    A pointer to the persistent parameters for the likelihood detector.
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    The PamView construct that allows for the selection of an acquisition source and channels.
    
    treeTable
    
    TreeTable treeTable
    
    The custom TreeTable widget, that forms the main area for configuration of the detector
    
    treeTableModel
    
    TreeTableModel treeTableModel
    
    The custom TreeTable widget's model, that forms the main area for configuration of the detector.
- Class likelihoodDetectionModule.LikelihoodFFTParameters
  
  class LikelihoodFFTParameters extends Object implements Serializable
  
  serialVersionUID:
  
  563L
  - Serialized Fields
    
    actualFreqResolution
    
    double actualFreqResolution
    
    The actual freq resolution, calculated from the requested frequency resolution.
    
    actualTimeResolution
    
    double actualTimeResolution
    
    The actual time resolution, calculated from the requested time resolution.
    
    channelMap
    
    int channelMap
    
    The channel map.
    
    fftHop
    
    int fftHop
    
    The fft hop.
    
    fftSize
    
    int fftSize
    
    The fft size.
    
    numberAverages
    
    int[] numberAverages
    
    The number averages.
    
    overlap
    
    double[] overlap
    
    The fft overlap.
    
    sourceNumber
    
    int sourceNumber
    
    The source number of the audio data source to be used (i.e., the acquisition module).
- Class likelihoodDetectionModule.NewBandNameDialog
  
  class NewBandNameDialog extends JDialog implements Serializable
  
  serialVersionUID:
  
  121213L
  - Serialized Fields
    
    accepted
    
    boolean accepted
    
    The accepted.
    
    bandType
    
    NewBandNameDialog.BandType bandType
    
    The band type.
    
    cancelButton
    
    JButton cancelButton
    
    The cancel button.
    
    existingIdentifiers
    
    ArrayList<String> existingIdentifiers
    
    The existing identifiers. The dialog will enforce a unique identifier be specified.
    
    identifierField
    
    JTextField identifierField
    
    The identifier field.
    
    mainPanel
    
    JPanel mainPanel
    
    The main panel.
    
    message
    
    JLabel message
    
    The message.
    
    okButton
    
    JButton okButton
    
    The ok button.
- Class likelihoodDetectionModule.SignalBand
  
  class SignalBand extends Object implements Serializable
  
  serialVersionUID:
  
  560L
  - Serialized Fields
    
    backgroundSeconds
    
    double backgroundSeconds
    
    The background seconds.
    
    endFrequencyHz
    
    double endFrequencyHz
    
    The end frequency hz.
    
    frequencyLimits
    
    double[] frequencyLimits
    
    The frequency's limits.
    
    guardBandThresholdDb
    
    double guardBandThresholdDb
    
    The guard band threshold, in db.
    
    guardBandThresholdLimits
    
    double[] guardBandThresholdLimits
    
    The guard band threshold's limits.
    
    identifier
    
    String identifier
    
    The signal band identifier. The configuration dialog will ensure that this is unique for each TargetDetection object.
    
    inBandThresholdDb
    
    double inBandThresholdDb
    
    The in-band threshold, in db.
    
    inBandThresholdLimits
    
    double[] inBandThresholdLimits
    
    The in-band threshold's limits.
    
    secondsLimits
    
    double[] secondsLimits
    
    The seconds between detection's limits.
    
    signalSeconds
    
    double signalSeconds
    
    The signal seconds.
    
    startFrequencyHz
    
    double startFrequencyHz
    
    The start frequency hz.
- Class likelihoodDetectionModule.TargetConfiguration
  
  class TargetConfiguration extends Object implements Serializable
  
  serialVersionUID:
  
  562L
  - Serialized Fields
    
    acquisitionSettings
    
    AcquisitionSettings acquisitionSettings
    
    The acquisition settings used to computer various parameter limits and other settings.
    
    algorithm
    
    NormalizerProcess.NormalizerAlgorithm algorithm
    
    The algorithm being used.
    
    channelMap
    
    int channelMap
    
    The channel map in use.
    
    fftParameters
    
    LikelihoodFFTParameters fftParameters
    
    The calculated fft parameters that will be required to run this configuration.
    
    frequencyResolution
    
    double frequencyResolution
    
    The frequency resolution.
    
    frequencyResolutionLimits
    
    double[] frequencyResolutionLimits
    
    The frequency resolution limits.
    
    guardBands
    
    ArrayList<GuardBand> guardBands
    
    The guard bands.
    
    identifier
    
    String identifier
    
    The identifier for the configuration. The configuration dialog will ensure that this string is unique for the configuration
    
    referenceGain
    
    double referenceGain
    
    The reference gain.
    
    secondsBetweenDetections
    
    double secondsBetweenDetections
    
    The seconds between detections.
    
    secondsBetweenDetectionsLimits
    
    double[] secondsBetweenDetectionsLimits
    
    The seconds between detections limits.
    
    signalBands
    
    ArrayList<SignalBand> signalBands
    
    The signal bands.
    
    state
    
    TargetConfiguration.State state
    
    The state.
    
    timeResolution
    
    double timeResolution
    
    The time resolution.
    
    timeResolutionLimits
    
    double[] timeResolutionLimits
    
    The time resolution limits.
- Class likelihoodDetectionModule.TargetConfigurationNameDialog
  
  class TargetConfigurationNameDialog extends JDialog implements Serializable
  
  serialVersionUID:
  
  121212L
  - Serialized Fields
    
    accepted
    
    boolean accepted
    
    The accepted.
    
    cancelButton
    
    JButton cancelButton
    
    The cancel button.
    
    existingIdentifiers
    
    ArrayList<String> existingIdentifiers
    
    The existing identifiers.
    
    identifierField
    
    JTextField identifierField
    
    The identifier field.
    
    mainPanel
    
    JPanel mainPanel
    
    The main panel.
    
    message
    
    JLabel message
    
    The message.
    
    okButton
    
    JButton okButton
    
    The ok button.
- Class likelihoodDetectionModule.TreeTable
  
  class TreeTable extends JTable implements Serializable
  
  serialVersionUID:
  
  3247234L
  - Serialized Fields
    
    model
    
    TreeTableModelAdapter model
    
    The tree table's back-end model adapter.
    
    See Also:
    
    TreeTableModelAdapter
    
    numberFormatter
    
    NumberFormatter numberFormatter
    
    The number formatter used within the tree table to format the real numbers.
    
    popupMenu
    
    JPopupMenu popupMenu
    
    The popup menu that is displayed when the user right-clicks inside the tree table.
    
    tree
    
    TreeTable.TreeTableCellRenderer tree
    
    The tree table's cell custom cell renderer.
    
    treeTableCellEditor
    
    TreeTable.TreeTableCellEditor treeTableCellEditor
    
    The custom tree table cell editor.
- Class likelihoodDetectionModule.TreeTable.AlgorithmComboBoxEditor
  
  class AlgorithmComboBoxEditor extends DefaultCellEditor implements Serializable
  
  serialVersionUID:
  
  23946L
- Class likelihoodDetectionModule.TreeTable.AssociatedSignalBandEditor
  
  class AssociatedSignalBandEditor extends DefaultCellEditor implements Serializable
  
  serialVersionUID:
  
  2903234L
- Class likelihoodDetectionModule.TreeTable.DoubleEditor
  
  class DoubleEditor extends DefaultCellEditor implements Serializable
  
  serialVersionUID:
  
  23476690L
  - Serialized Fields
    
    component
    
    Component component
    
    The component.
    
    max
    
    double max
    
    The max.
    
    min
    
    double min
    
    The min.
- Class likelihoodDetectionModule.TreeTable.TreeTableCellRenderer
  
  class TreeTableCellRenderer extends JTree implements Serializable
  
  serialVersionUID:
  
  272362234L
  - Serialized Fields
    
    visibleRow
    
    int visibleRow
    
    Last table/tree row asked to renderer. This is used to keep track of widget height and next-point-of-insert.
- Class likelihoodDetectionModule.TreeTableModelAdapter
  
  class TreeTableModelAdapter extends AbstractTableModel implements Serializable
  
  serialVersionUID:
  
  7773263L
  - Serialized Fields
    
    tree
    
    JTree tree
    
    The tree part of the internals of the TreeTable. Some calls will be made directly on it.
    
    treeTableModel
    
    TreeTableModel treeTableModel
    
    The tree table model that this model wraps.
Package listening
- Class listening.ListeningDialog
  
  class ListeningDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    addButton
    
    JButton addButton
    
    downButton
    
    JButton downButton
    
    editButton
    
    JButton editButton
    
    listeningControl
    
    ListeningControl listeningControl
    
    listeningParameters
    
    ListeningParameters listeningParameters
    
    removeButton
    
    JButton removeButton
    
    table
    
    JTable table
    
    tableData
    
    listening.ListeningDialog.LTableData tableData
    
    upButton
    
    JButton upButton
- Class listening.ListeningParameters
  
  class ListeningParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    effortStati
    
    Vector<String> effortStati
    
    hydrophones
    
    int hydrophones
    
    nVolumes
    
    int nVolumes
    
    speciesList
    
    Vector<SpeciesItem> speciesList
- Class listening.SpeciesItem
  
  class SpeciesItem extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    name
    
    String name
    
    symbol
    
    PamSymbol symbol
Package loc3d_Thode
- Class loc3d_Thode.TowedArray3DParametersDialog
  
  class TowedArray3DParametersDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    alglist
    
    JComboBox alglist
    
    fine_tune_tdd_checkbox
    
    JCheckBox fine_tune_tdd_checkbox
    
    fine_tune_tds_checkbox
    
    JCheckBox fine_tune_tds_checkbox
    
    maxTimeDelay
    
    JTextField maxTimeDelay
    
    maxTimeQueue
    
    JTextField maxTimeQueue
    
    minIciNum
    
    JTextField minIciNum
    
    percentErrorAngle
    
    JTextField percentErrorAngle
    
    percentErrorEchoTime
    
    JTextField percentErrorEchoTime
    
    sourcePanel
    
    SourcePanel sourcePanel
    
    towedArray3DController
    
    TowedArray3DController towedArray3DController
    
    towedArray3DProcessParameters
    
    TowedArray3DProcessParameters towedArray3DProcessParameters
    
    yes_checkbox
    
    JCheckBox yes_checkbox
- Class loc3d_Thode.TowedArray3DProcessParameters
  
  class TowedArray3DProcessParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    algchoice
    
    int algchoice
    
    Choose algorithm
    
    channelList
    
    int channelList
    
    Bitmap of channels to be used - use all available.
    
    detectorDataBlock
    
    int detectorDataBlock
    
    Use first detector block in model
    
    fine_tune_tdd
    
    boolean fine_tune_tdd
    
    fine_tune_tds
    
    boolean fine_tune_tds
    
    maxTimeDelay
    
    long maxTimeDelay
    
    Maximum time delay to assoicate with a multipath
    
    maxTimeQueue
    
    long maxTimeQueue
    
    Amount of time to keep potential 3-D detections in memory, msec
    
    minICINum
    
    int minICINum
    
    How many multipath assumed to exist per event(anchor)?
    
    percentErrorAngle
    
    long percentErrorAngle
    
    percentICIMatchError
    
    long percentICIMatchError
    
    yes_process
    
    boolean yes_process
Package Localiser
- Class Localiser.DelayMeasurementParams
  
  class DelayMeasurementParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    delayFilterParams
    
    FFTFilterParams delayFilterParams
    
    Parameters for bearing filter
    
    envelopeBearings
    
    boolean envelopeBearings
    
    Measure bearings from the waveform envelope, not the full wavefrom.
    
    filterBearings
    
    boolean filterBearings
    
    Filter data prior to bearing measurement
    
    leadingEdgeSearchRegion
    
    int[] leadingEdgeSearchRegion
    
    restrictedBins
    
    int restrictedBins
    
    The number of restrcited bins to use.
    
    upSample
    
    int upSample
    
    Waveform upsampling for correlation measurements. Will only put an option for 1 or 2, but leave generic for the future ...
    
    useLeadingEdge
    
    boolean useLeadingEdge
    
    When using envelope, just take the leading edge.
    
    useRestrictedBins
    
    boolean useRestrictedBins
    
    Restrict the number of bins from sample 0 to use- helps with detection snippets that contain echoes
Package Localiser.algorithms.genericLocaliser.MCMC
- Class Localiser.algorithms.genericLocaliser.MCMC.MCMCParams2
  
  class MCMCParams2 extends Object implements Serializable
  
  serialVersionUID:
  
  3L
  - Serialized Fields
    
    chainAnalysis
    
    int chainAnalysis
    
    Parameters for analysis of chains
    
    chainStartDispersion
    
    double[][] chainStartDispersion
    
    Where in parameter space the chains should start. Each value in the array is for one dimension. When chains start a random number between the two numbers is chosen as the start position in that dimension for the chain.
    
    clusterAnalysis
    
    int clusterAnalysis
    
    The type of cluster analysis to use to merge the different chains if they converge on the same or ambiguous results. See K_MEANS and NONE constants.
    
    cylindricalCoOrdinates
    
    boolean cylindricalCoOrdinates
    
    Use cylindrical jumps.
    
    jumpSize
    
    double[] jumpSize
    
    The size of Gaussian distribution for the jump in each dimension;
    
    kmeanAttempts
    
    int kmeanAttempts
    
    The number of times to perform a k-means algorithm on results The algorithm starts clusters at random locations.
    
    kmeansIterations
    
    int kmeansIterations
    
    The number of iterations for each k-means attempt. K-means converges to a result but requires a certain number of iteration to do so.
    
    maxClusterSize
    
    double maxClusterSize
    
    nKMeans
    
    Integer nKMeans
    
    numberOfChains
    
    int numberOfChains
    
    The number of seperate chains to use in the simulation
    
    numberOfJumps
    
    int numberOfJumps
    
    The number of jumps in each Markov chain to attempt. (not the total successful jumps that should be reached before the chain ends)
    
    percentageToIgnore
    
    double percentageToIgnore
Package Localiser.algorithms.genericLocaliser.MCMC.old
- Class Localiser.algorithms.genericLocaliser.MCMC.old.MCMCParams
  
  class MCMCParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    chainAnalysis
    
    int chainAnalysis
    
    chainStartDispersion
    
    double chainStartDispersion
    
    clusterAnalysis
    
    int clusterAnalysis
    
    cylindricalCoOrdinates
    
    boolean cylindricalCoOrdinates
    
    jumpSize
    
    double jumpSize
    
    maxClusterSize
    
    double maxClusterSize
    
    nKMeans
    
    Integer nKMeans
    
    numberOfChains
    
    Integer numberOfChains
    
    numberOfJumps
    
    Integer numberOfJumps
    
    percentageToIgnore
    
    double percentageToIgnore
    
    timeError
    
    double timeError
- Class Localiser.algorithms.genericLocaliser.MCMC.old.MCMCParamsDialog
  
  class MCMCParamsDialog extends PamDialog implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    ChainStartDispersion
    
    JTextField ChainStartDispersion
    
    cylindricalCoOrdinates
    
    JCheckBox cylindricalCoOrdinates
    
    Error
    
    JTextField Error
    
    errors
    
    PamPanel errors
    
    The panel which holds controsl for changing the error.
    
    jumpSize
    
    JTextField jumpSize
    
    kMeansClustering
    
    JRadioButton kMeansClustering
    
    mainPanel
    
    PamPanel mainPanel
    
    mCMCParameters
    
    MCMCParams mCMCParameters
    
    Other MCMC params - legacy settings class.
    
    mCMCParameters2
    
    MCMCParams2 mCMCParameters2
    
    MCMC params for loclaiser
    
    mCMCPropPanel
    
    PamPanel mCMCPropPanel
    
    minDistance
    
    JTextField minDistance
    
    nClusters
    
    JTextField nClusters
    
    noClustering
    
    JRadioButton noClustering
    
    numberOfChains
    
    JTextField numberOfChains
    
    numberOfJumps
    
    JTextField numberOfJumps
    
    percentage
    
    JTextField percentage
    
    percentageButton
    
    JRadioButton percentageButton
Package Localiser.algorithms.timeDelayLocalisers.bearingLoc
- Class Localiser.algorithms.timeDelayLocalisers.bearingLoc.DelayOptionsDialog
  
  class DelayOptionsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    delayMeasurementParams
    
    DelayMeasurementParams delayMeasurementParams
    
    delayOptionsPanel
    
    DelayOptionsPanel delayOptionsPanel
- Class Localiser.algorithms.timeDelayLocalisers.bearingLoc.MLGridBearingLocaliser2.LocaliserParams
  
  class LocaliserParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    phiStep
    
    double phiStep
    
    thetaStep
    
    double thetaStep
Package Localiser.algorithms.timeDelayLocalisers.hyperbolic
- Class Localiser.algorithms.timeDelayLocalisers.hyperbolic.HyperbolicParams
  
  class HyperbolicParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    bootStrapN
    
    int bootStrapN
    
    Number of iterations to calculate error. More=more computational time per localisation;
    
    calcErrors
    
    boolean calcErrors
    
    Calculates errors from a random distribution of time delay errors
    
    crossCorrError
    
    double crossCorrError
    
    The cross correlation error in bins.
    
    currentType
    
    int currentType
    
    The current type of hyperbolic localiser to use.
Package Localiser.controls
- Class Localiser.controls.RawOrFFTParams
  
  class RawOrFFTParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    fftHop
    
    int fftHop
    
    fftLength
    
    int fftLength
    
    sourceName
    
    String sourceName
    
    windowFunction
    
    int windowFunction
- Class Localiser.controls.TOADTimingParams
  
  class TOADTimingParams extends DelayMeasurementParams implements Serializable
  
  serialVersionUID:
  
  1L
Package loggerForms
- Class loggerForms.FormPlotOptions
  
  class FormPlotOptions extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    controlChoices
    
    boolean[][] controlChoices
- Class loggerForms.FormsDataUnitEditDialog
  
  class FormsDataUnitEditDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    formDataUnit
    
    FormsDataUnit formDataUnit
    
    formDescription
    
    FormDescription formDescription
    
    loggerForm
    
    LoggerForm loggerForm
- Class loggerForms.FormSettings
  
  class FormSettings extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    splitPanelPosition
    
    Integer splitPanelPosition
- Class loggerForms.FormsParameters
  
  class FormsParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    allowViewerChanges
    
    boolean allowViewerChanges
- Class loggerForms.FormsPlotOptionsDialog
  
  class FormsPlotOptionsDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    answer
    
    boolean answer
    
    formsControl
    
    FormsControl formsControl
    
    optionsPanels
    
    ArrayList<FormPlotOptionsPanel> optionsPanels
- Class loggerForms.LatLongTime
  
  class LatLongTime extends LatLong implements Serializable
  - Serialized Fields
    
    timeInMillis
    
    Long timeInMillis
- Class loggerForms.LoggerFormPanel
  
  class LoggerFormPanel extends PamPanel implements Serializable
  - Serialized Fields
    
    loggerForm
    
    LoggerForm loggerForm
- Class loggerForms.LoggerSubTabbedPane
  
  class LoggerSubTabbedPane extends PamTabbedPane implements Serializable
  - Serialized Fields
    
    defaultColor
    
    PamColors.PamColor defaultColor
    
    formDescription
    
    FormDescription formDescription
- Class loggerForms.LoggerTabbedPane
  
  class LoggerTabbedPane extends PamTabbedPane implements Serializable
  - Serialized Fields
    
    defaultColor
    
    PamColors.PamColor defaultColor
    
    formsControl
    
    FormsControl formsControl
Package loggerForms.controls
- Class loggerForms.controls.LoggerFormLabel
  
  class LoggerFormLabel extends PamLabel implements Serializable
  - Serialized Fields
    
    loggerForm
    
    LoggerForm loggerForm
Package loggerForms.dataselect
- Class loggerForms.dataselect.ControlDataSelParams
  
  class ControlDataSelParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
- Class loggerForms.dataselect.FormDataSelParams
  
  class FormDataSelParams extends DataSelectParams implements Serializable
  - Serialized Fields
    
    controlName
    
    String controlName
    
    Form params currently only allow data selection from a single control. For finding controls, this will be based on control titles (.getTitle())
    
    controlParams
    
    ControlDataSelParams controlParams
- Class loggerForms.dataselect.LookupDataSelParams
  
  class LookupDataSelParams extends ControlDataSelParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    itemSelection
    
    HashMap<String,Boolean> itemSelection
    
    useUnassigned
    
    boolean useUnassigned
Package loggerForms.formdesign
- Class loggerForms.formdesign.FormEditDialog
  
  class FormEditDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    editControlPanel
    
    EditControlPanel editControlPanel
    
    editPropertyPanel
    
    EditPropertyPanel editPropertyPanel
    
    formCancelled
    
    boolean formCancelled
    
    formDescription
    
    FormDescription formDescription
    
    formEditor
    
    FormEditor formEditor
    
    previewButton
    
    JButton previewButton
    
    selectedTitle
    
    ControlTitle selectedTitle
- Class loggerForms.formdesign.FormList
  
  class FormList extends ArrayList<o extends ItemDescription> implements Serializable
  
  serialVersionUID:
  
  1L
- Class loggerForms.formdesign.PreviewDialog
  
  class PreviewDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    loggerForm
    
    LoggerForm loggerForm
Package loggerForms.monitor
- Class loggerForms.monitor.FormsSelectorParams
  
  class FormsSelectorParams extends DataSelectParams implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    formSelection
    
    Hashtable<String,Boolean> formSelection
Package ltsa
- Class ltsa.LtsaDialog
  
  class LtsaDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    interval
    
    JTextField interval
    
    ltsaControl
    
    LtsaControl ltsaControl
    
    ltsaParameters
    
    LtsaParameters ltsaParameters
    
    sourcePanel
    
    SourcePanel sourcePanel
- Class ltsa.LtsaModuleHeader
  
  class LtsaModuleHeader extends ModuleHeader implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    ffthop
    
    int ffthop
    
    fftLength
    
    int fftLength
    
    intervalSeconds
    
    int intervalSeconds
- Class ltsa.LtsaParameters
  
  class LtsaParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    channelMap
    
    int channelMap
    
    dataSource
    
    String dataSource
    
    intervalSeconds
    
    int intervalSeconds
    
    Interval for basic measurements.
    
    longerFactor
    
    int longerFactor
    
    Factor for longer term averages.

Package Map

Class Map.DisplayPanZoom

class DisplayPanZoom extends JPanel implements Serializable

Serialized Fields

centreOnShip
```
JButton centreOnShip
```
down
```
JButton down
```
downLeft
```
JButton downLeft
```
downRight
```
JButton downRight
```
handler
```
PanZoomBehaviour handler
```
headUp
```
JButton headUp
```
left
```
JButton left
```
measureWithMouse
```
JButton measureWithMouse
```

mouseAdapter

Map.DisplayPanZoom.PanZoomMouseAdapter mouseAdapter

northUp
```
JButton northUp
```
panWithMouse
```
JButton panWithMouse
```
right
```
JButton right
```
rotateAntiClockwise
```
JButton rotateAntiClockwise
```
rotateClockwise
```
JButton rotateClockwise
```
up
```
JButton up
```
upLeft
```
JButton upLeft
```
upRight
```
JButton upRight
```
zoomIn
```
JButton zoomIn
```
zoomOut
```
JButton zoomOut
```

Class Map.GpsTextDisplay

class GpsTextDisplay extends JPanel implements Serializable

Serialized Fields

course

Map.GpsTextDisplay.GpsTextAreaLabel course

cursorBearing

Map.GpsTextDisplay.GpsTextAreaLabel cursorBearing

cursorLat

Map.GpsTextDisplay.GpsTextAreaLabel cursorLat

cursorLong

Map.GpsTextDisplay.GpsTextAreaLabel cursorLong

cursorPanel

Map.GpsTextDisplay.TextAreaPanel cursorPanel

cursorRange

Map.GpsTextDisplay.GpsTextAreaLabel cursorRange

cursorRangeNmi

Map.GpsTextDisplay.GpsTextAreaLabel cursorRangeNmi

cursorReference

Map.GpsTextDisplay.GpsTextAreaLabel cursorReference

date

Map.GpsTextDisplay.GpsTextAreaLabel date

gpsPanel

Map.GpsTextDisplay.TextAreaPanel gpsPanel

heading

Map.GpsTextDisplay.GpsTextAreaLabel heading

headingLabel

Map.GpsTextDisplay.GpsTextAreaLabel headingLabel

labelColor
```
Color labelColor
```

lastFixTime

Map.GpsTextDisplay.GpsTextAreaLabel lastFixTime

lastFixType
```
String lastFixType
```
lastMouseLatLong
```
LatLong lastMouseLatLong
```

latitude

Map.GpsTextDisplay.GpsTextAreaLabel latitude

longitude

Map.GpsTextDisplay.GpsTextAreaLabel longitude

magneticDeviation

Map.GpsTextDisplay.GpsTextAreaLabel magneticDeviation

mapController
```
MapController mapController
```
mouseX
```
double mouseX
```
mouseY
```
double mouseY
```
simpleMap
```
SimpleMap simpleMap
```

speed

Map.GpsTextDisplay.GpsTextAreaLabel speed

time

Map.GpsTextDisplay.GpsTextAreaLabel time

Class Map.MapCommentDialog

class MapCommentDialog extends PamDialog implements Serializable
- Serialized Fields
  - dateLabel
    
    JLabel dateLabel
  - latLongLabel
    
    JLabel latLongLabel
  - mapComment
    
    MapComment mapComment
  - mapPanel
    
    MapPanel mapPanel
  - mapPoint
    
    Point mapPoint
  - textArea
    
    JTextArea textArea
Class Map.MapControlSettings

class MapControlSettings extends Object implements Serializable

serialVersionUID:

1L
Class Map.MapDetectionData

class MapDetectionData extends OverlayDataInfo implements Serializable

serialVersionUID:

0L
- Serialized Fields
  - allAvailable
    
    boolean allAvailable
    
    Plot all available data, regardless of time.
  - displayMilliseconds
    
    long displayMilliseconds
  - displaySeconds
    
    long displaySeconds
    
    Plot up to this many seconds back in time from now.
  - fade
    
    boolean fade
    
    Fade over time, disappearing at 'displaySeconds'
  - lookAhead
    
    boolean lookAhead
    
    Display data ahead of the scrollbar (future data) instead of behind

Class Map.MapDetectionsDialog

class MapDetectionsDialog extends PamDialog implements Serializable

Serialized Fields

allAvailable
```
JCheckBox[] allAvailable
```
defaults
```
JButton[] defaults
```
fades
```
JCheckBox[] fades
```
lookAhead
```
JCheckBox[] lookAhead
```

mapDetectionsManager

MapDetectionsManager mapDetectionsManager

mapDetectionsParameters

MapDetectionsParameters mapDetectionsParameters

options
```
JButton[] options
```
plotCheckBox
```
JCheckBox[] plotCheckBox
```
showTimes
```
JTextField[] showTimes
```

Class Map.MapDetectionsParameters

class MapDetectionsParameters extends Object implements Serializable

serialVersionUID:

0L
- Serialized Fields
  - mapDetectionDatas
    
    ArrayList<MapDetectionData> mapDetectionDatas

Class Map.MapPanel

class MapPanel extends JPanelWithPamKey implements Serializable

serialVersionUID:: 1L

Serialized Fields

arraygeom
```
Coordinate3d[] arraygeom
```
arrayPanelOffsets
```
Coordinate3d[] arrayPanelOffsets
```
arrayPanelPositions
```
Coordinate3d[] arrayPanelPositions
```
baseDrawing
```
BufferedImage baseDrawing
```
baseXform
```
AffineTransform baseXform
```

constantOverlays

ArrayList<PanelOverlayDraw> constantOverlays

contourColours
```
Color[] contourColours
```
contourDepths
```
int[] contourDepths
```
currentColorScheme
```
ColourScheme currentColorScheme
```
detectorMenu
```
JPopupMenu detectorMenu
```
detectorPopupListener
```
MouseAdapter detectorPopupListener
```
grid
```
StraightLineGrid grid
```
imageHeight
```
int imageHeight
```
imageWidth
```
int imageWidth
```
lastArray
```
PamArray lastArray
```
lastDrawGpsDataUnit
```
GpsDataUnit lastDrawGpsDataUnit
```
lastGpsCoodinate
```
Coordinate3d lastGpsCoodinate
```
lastHeight
```
int lastHeight
```
lastMapCentreDegrees
```
LatLong lastMapCentreDegrees
```
lastMapRangeMetres
```
int lastMapRangeMetres
```
lastMapRotationDegrees
```
double lastMapRotationDegrees
```
lastWidth
```
int lastWidth
```
latestEffort
```
EffortDataUnit latestEffort
```
latestSymbol
```
PamSymbol latestSymbol
```
mapCentreDegrees
```
LatLong mapCentreDegrees
```
mapContourGraphics
```
MapContourGraphics mapContourGraphics
```
mapController
```
MapController mapController
```
mapRangeMetres
```
int mapRangeMetres
```
maxCornerLatLong
```
LatLong maxCornerLatLong
```
measureSymbol
```
PamSymbol measureSymbol
```
minCornerLatLong
```
LatLong minCornerLatLong
```
myCompass
```
Compass myCompass
```
panZoomMenu
```
JCheckBoxMenuItem panZoomMenu
```
pixelsPerMetre
```
double pixelsPerMetre
```
plotDetectorMenu
```
JPopupMenu plotDetectorMenu
```
popupListener
```
MouseAdapter popupListener
```
rectProj
```
MapRectProjector rectProj
```
repaintBase
```
boolean repaintBase
```
ship
```
Vessel ship
```
showGpsMenu
```
JCheckBoxMenuItem showGpsMenu
```
showKeyMenu
```
JCheckBoxMenuItem showKeyMenu
```
simpleMapRef
```
SimpleMap simpleMapRef
```
trans
```
TransformUtilities trans
```
wantedContours
```
boolean[] wantedContours
```

Class Map.MapParameters

class MapParameters extends Object implements Serializable

serialVersionUID:

1L
- Serialized Fields
  - allow3D
    
    boolean allow3D
    
    Allow 3D rotation using the shift key and mouse movement.
  - colourByEffort
    
    boolean colourByEffort
  - colourHydrophonesByChannel
    
    boolean colourHydrophonesByChannel
  - dataKeepTime
    
    int dataKeepTime
    
    How long to keep GPS and other data for, even if it's not being used.
  - dataShowTime
    
    int dataShowTime
    
    How long a period to show detector data for. This is generally just used as a default now, with most datablocks having their own time set that they show foe.
  - effortDataSource
    
    String effortDataSource
    
    Name of data block providing effort data.
  - headingUp
    
    boolean headingUp
  - hideGrid
    
    boolean hideGrid
  - hideShip
    
    boolean hideShip
    
    hide ship. Have to use the negative in order to not mess old configurations.
  - hideSurface
    
    boolean hideSurface
    
    hide the sea surface
  - keepShipCentred
    
    boolean keepShipCentred
  - keepShipOnMap
    
    boolean keepShipOnMap
  - mapContours
    
    boolean[] mapContours
  - mapFile
    
    File mapFile
  - mapRangeMetres
    
    int mapRangeMetres
    
    Value to store persistently between runs.
  - rangeRingDistance
    
    double rangeRingDistance
  - showGpsData
    
    boolean showGpsData
  - showHydrophones
    
    boolean showHydrophones
    
    A flag to enable/disable drawing of the hydrophone array on the map
  - showKey
    
    boolean showKey
  - showPanZoom
    
    boolean showPanZoom
  - showRangeRings
    
    int showRangeRings
  - symbolSize
    
    int symbolSize
  - trackShowTime
    
    int trackShowTime
    
    How long to display the ships track for
  - viewerShowAll
    
    boolean viewerShowAll
    
    In the viewer, show all loaded detections, rather than just the ons in the showtimes up to the curent cursor position time.

Class Map.MapParametersDialog

class MapParametersDialog extends PamDialog implements Serializable

Serialized Fields

allow3D
```
JCheckBox allow3D
```
colourByChannel
```
JCheckBox colourByChannel
```
colourByEffort
```
JCheckBox colourByEffort
```
dataKeepTime
```
JTextField dataKeepTime
```
dataShowTime
```
JTextField dataShowTime
```
effortSettings
```
SettingsButton effortSettings
```
effortSourcePanel
```
EffortSourcePanel effortSourcePanel
```

filePanel

Map.MapParametersDialog.FilePanel filePanel

gridDialogPanel
```
GridDialogPanel gridDialogPanel
```
headingUp
```
JCheckBox headingUp
```
hydroCheckBox
```
JCheckBox hydroCheckBox
```

hydrophonePanel

Map.MapParametersDialog.HydrophonePanel hydrophonePanel

keepShipCentred
```
JCheckBox keepShipCentred
```
keepShipOnMap
```
JCheckBox keepShipOnMap
```
mapFileManager
```
MapFileManager mapFileManager
```
mapParameters
```
MapParameters mapParameters
```
ringsRange
```
JTextField ringsRange
```
ringsType
```
JComboBox<String> ringsType
```
shipCheckBox
```
JCheckBox shipCheckBox
```
showGrid
```
JCheckBox showGrid
```
showSurface
```
JCheckBox showSurface
```
simpleMap
```
SimpleMap simpleMap
```
symbolSize
```
SpinnerNumberModel symbolSize
```
symbolSizeSpinner
```
JSpinner symbolSizeSpinner
```
trackShowtime
```
JTextField trackShowtime
```

Class Map.MouseMeasureDisplay

class MouseMeasureDisplay extends PamBorderPanel implements Serializable
- Serialized Fields
  - bearing
    
    PamLabel bearing
  - border
    
    TitledBorder border
  - latitude
    
    PamLabel latitude
  - longitude
    
    PamLabel longitude
  - mapController
    
    MapController mapController
  - range
    
    PamLabel range
  - rangeNmi
    
    PamLabel rangeNmi
  - simpleMap
    
    SimpleMap simpleMap

Class Map.SimpleMap

class SimpleMap extends JPanel implements Serializable

serialVersionUID:: 4328052737031247745L

Serialized Fields

centerOnFirstShipGPS
```
boolean centerOnFirstShipGPS
```
clipboardCopier
```
ClipboardCopier clipboardCopier
```
controlContiner
```
JPanel controlContiner
```
dataBlocks
```
ArrayList<PamDataBlock> dataBlocks
```
diffCursorPos
```
Coordinate3d diffCursorPos
```
effortDataBlock
```
PamDataBlock effortDataBlock
```
externalMouseHandler
```
ExtMapMouseHandler externalMouseHandler
```
gpsControl
```
GPSControl gpsControl
```
gpsDataBlock
```
GPSDataBlock gpsDataBlock
```
gpsTextPanel
```
GpsTextDisplay gpsTextPanel
```
gridBaseControl
```
GridbaseControl gridBaseControl
```
hiddenSlider
```
HiddenSlider hiddenSlider
```
hiddenSliderTime
```
Integer hiddenSliderTime
```
initialisationComplete
```
boolean initialisationComplete
```
isMainTab
```
boolean isMainTab
```
lastClickedMouseLatLong
```
LatLong lastClickedMouseLatLong
```
mapCanScroll
```
boolean mapCanScroll
```
mapController
```
MapController mapController
```

mapDetectionsManager

MapDetectionsManager mapDetectionsManager

mapFileManager
```
MapFileManager mapFileManager
```

mapMarker

Map.SimpleMap.MapOverlayMarker mapMarker

mapPanel
```
MapPanel mapPanel
```
mapParameters
```
MapParameters mapParameters
```
mousedDataUnit
```
PamDataUnit mousedDataUnit
```
mouseDownPoint
```
Point mouseDownPoint
```
mouseDragging
```
boolean mouseDragging
```
mouseDragPoint
```
Point mouseDragPoint
```

mouseInput

Map.SimpleMap.MapMouseInputAdapter mouseInput

mouseMeasureDisplay
```
MouseMeasureDisplay mouseMeasureDisplay
```

mouseMotion

Map.SimpleMap.MapMouseMotionAdapter mouseMotion

mouseReleased
```
boolean mouseReleased
```

mouseWheel

Map.SimpleMap.MouseWheelHandler mouseWheel

newCursorPos
```
Coordinate3d newCursorPos
```
oldCursorPos
```
Coordinate3d oldCursorPos
```
panZoom
```
DisplayPanZoom panZoom
```
panZoomOnMap
```
PamZoomOnMapPanel panZoomOnMap
```
shipRotTest
```
double shipRotTest
```
thisMapIndex
```
int thisMapIndex
```
viewerControls
```
JPanel viewerControls
```
viewerScroller
```
PamScrollSlider viewerScroller
```
viewerShowAll
```
JRadioButton viewerShowAll
```
viewerShowSelection
```
JRadioButton viewerShowSelection
```

Class Map.Vessel

class Vessel extends PamSymbol implements Serializable

serialVersionUID:: 6610207880007794175L

Serialized Fields

centreOfRotation
```
Coordinate3d centreOfRotation
```
dimA
```
double dimA
```
dimB
```
double dimB
```
dimC
```
double dimC
```
dimD
```
double dimD
```
gpsReceiverPosition
```
Coordinate3d gpsReceiverPosition
```
pixelsPerMetre
```
double pixelsPerMetre
```
predictionArrow
```
int predictionArrow
```
shipGps
```
GpsData shipGps
```
shipIconLength
```
double shipIconLength
```
shipLocation
```
LatLong shipLocation
```
shipOutline
```
Coordinate3d[] shipOutline
```
shipPolygon
```
Coordinate3d[] shipPolygon
```
shipPolygonLatLog
```
LatLong[] shipPolygonLatLog
```
shipPosition
```
Coordinate3d shipPosition
```
vesselColor
```
Color vesselColor
```
vesselLength
```
double vesselLength
```
vesselLengthWidthRatio
```
double vesselLengthWidthRatio
```
vesselWidth
```
double vesselWidth
```

Package Map.gridbaselayer
- Class Map.gridbaselayer.GridbaseDialog
  
  class GridbaseDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    answer
    
    boolean answer
    
    gridbaseControl
    
    GridbaseControl gridbaseControl
    
    gridDialogPanel
    
    GridDialogPanel gridDialogPanel
- Class Map.gridbaselayer.GridbaseParameters
  
  class GridbaseParameters extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    netCDFFile
    
    String netCDFFile
Package mapgrouplocaliser
- Class mapgrouplocaliser.MapGrouperDialog
  
  class MapGrouperDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    annotationSelectionPanel
    
    AnnotationsSelectionPanel annotationSelectionPanel
    
    mapGroupLocaliserControl
    
    MapGroupLocaliserControl mapGroupLocaliserControl
    
    markProvidersPanel
    
    MarkProvidersPanel markProvidersPanel
    
    okPressed
    
    boolean okPressed
    
    overlayDataManager
    
    MapGroupOverlayManager overlayDataManager
    
    overlayPanel
    
    OverlaySwingPanel overlayPanel
- Class mapgrouplocaliser.MapGrouperSettings
  
  class MapGrouperSettings extends Object implements Serializable
  
  serialVersionUID:
  
  0L
  - Serialized Fields
    
    annotationChoices
    
    AnnotationChoices annotationChoices
    
    markDataSelectorParams
    
    MarkDataSelectorParams markDataSelectorParams
Package matchedTemplateClassifer
- Class matchedTemplateClassifer.DefaultTemplates
  
  class DefaultTemplates extends MTClassifier implements Serializable
  
  serialVersionUID:
  
  1L
- Class matchedTemplateClassifer.MatchedTemplateParams
  
  class MatchedTemplateParams extends Object implements Serializable
  
  serialVersionUID:
  
  5L
  - Serialized Fields
    
    channelClassification
    
    int channelClassification
    
    Integer flag for how to perform channel classification. 0) Require positive identification on all channels individually 1) Only one channel requires classiifciation classification, 2) Use the mean of the channels.
    
    classifiers
    
    ArrayList<MTClassifier> classifiers
    
    The MT classifiers. Each has two templates; a match template and reject template
    
    dataSourceIndex
    
    int dataSourceIndex
    
    The index of the data source.
    
    dataSourceName
    
    String dataSourceName
    
    The source data block
    
    enableFFTFilter
    
    boolean enableFFTFilter
    
    Enable filtering of data before classificatiom
    
    fftFilterParams
    
    FFTFilterParams fftFilterParams
    
    The FFT filter params to use.
    
    lengthdB
    
    double lengthdB
    
    dB drop in waveform for peak search.
    
    normalisationType
    
    int normalisationType
    
    The normalisation type to use.
    
    pamSymbol
    
    SymbolData pamSymbol
    
    Symbol data for the classifier.
    
    peakSearch
    
    boolean peakSearch
    
    True to search for for wave peak and sample around it.
    
    peakSmoothing
    
    int peakSmoothing
    
    The amount of smoothing to do when searching for a click peak.
    
    restrictedBins
    
    int restrictedBins
    
    The number of bins to sample around.
    
    type
    
    byte type
    
    The type to set the click to.
- Class matchedTemplateClassifer.MatchTemplate
  
  class MatchTemplate extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    name
    
    String name
    
    sR
    
    float sR
    
    waveform
    
    double[] waveform
- Class matchedTemplateClassifer.MTClassifier
  
  class MTClassifier extends Object implements Serializable
  
  serialVersionUID:
  
  2L
  - Serialized Fields
    
    currentSr
    
    double currentSr
    
    The current sample rates of the waveforms
    
    inteprWaveformReject
    
    double[] inteprWaveformReject
    
    Copy of the current reject waveform which is at the sampleRate specified by MTClassifier.currentSr
    
    interpWaveformMatch
    
    double[] interpWaveformMatch
    
    Copy of the current match waveform which is at the sampleRate specified by MTClassifier.currentSr
    
    normalisation
    
    int normalisation
    
    The normalisation
    
    thresholdToAccept
    
    double thresholdToAccept
    
    Threshold to classify
    
    waveformMatch
    
    MatchTemplate waveformMatch
    
    The waveform to match
    
    waveformMatchFFT
    
    ComplexArray waveformMatchFFT
    
    The waveform match FFT
    
    waveformReject
    
    MatchTemplate waveformReject
    
    The waveform to reject
    
    waveformRejectFFT
    
    ComplexArray waveformRejectFFT
    
    The waveform match FFT
Package mcc.mccacquisition
- Class mcc.mccacquisition.MCCDaqParams
  
  class MCCDaqParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    boardIndex
    
    int boardIndex
    
    differential
    
    boolean differential
    
    rangeData
    
    AnalogRangeData rangeData
Package mcc.mccjna
- Exception Class mcc.mccjna.MCCException
  
  class MCCException extends Exception implements Serializable
  
  serialVersionUID:
  
  1L
Package metadata
- Class metadata.PamguardMetaData
  
  class PamguardMetaData extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    deploymentWrapper
    
    NilusSettingsWrapper<nilus.Deployment> deploymentWrapper
    
    useAudioForDeploymentTimes
    
    boolean useAudioForDeploymentTimes
Package metadata.swing
- Class metadata.swing.MetaDataDialog
  
  class MetaDataDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    deploymentPeriodPanel
    
    DeploymentPeriodPanel deploymentPeriodPanel
    
    descriptionPanel
    
    DescriptionTypePanel descriptionPanel
    
    pamguardMetaData
    
    PamguardMetaData pamguardMetaData
    
    projectInformationPanel
    
    ProjectInformationPanel projectInformationPanel
    
    responsiblePanel
    
    ResponsiblePartyPanel responsiblePanel
    
    tethysControl
    
    TethysControl tethysControl
Package modbustcp
- Exception Class modbustcp.ModbusTCPException
  
  class ModbusTCPException extends Exception implements Serializable
Package networkTransfer.emulator
- Class networkTransfer.emulator.EmulateDialog
  
  class EmulateDialog extends PamDialog implements Serializable
  - Serialized Fields
    
    buoyNumberModel
    
    SpinnerNumberModel buoyNumberModel
    
    circleRadius
    
    JTextField circleRadius
    
    dataCheckBoxes
    
    ArrayList<JCheckBox> dataCheckBoxes
    
    emulatorParams
    
    EmulatorParams emulatorParams
    
    latLong
    
    JLabel latLong
    
    nBuoys
    
    JSpinner nBuoys
    
    networkEmulator
    
    NetworkEmulator networkEmulator
    
    networkObjectPacker
    
    NetworkObjectPacker networkObjectPacker
    
    startButton
    
    JButton startButton
    
    statusInterval
    
    JTextField statusInterval
    
    statusPanel
    
    networkTransfer.emulator.EmulateDialog.StatusPanel statusPanel
    
    stopButton
    
    JButton stopButton
    
    tableTimer
    
    Timer tableTimer
    
    usedDataBlocks
    
    ArrayList<PamDataBlock> usedDataBlocks
- Class networkTransfer.emulator.EmulatorParams
  
  class EmulatorParams extends Object implements Serializable
  
  serialVersionUID:
  
  1L
  - Serialized Fields
    
    circleRadius
    
    double circleRadius
    
    firstBuoyId
    
    int firstBuoyId
    
    gpsCentre
    
    LatLong gpsCentre
    
    nBuoys
    
    int nBuoys
    
    statusIntervalSeconds
    
    int statusIntervalSeconds
    
    usedBlocks
    
    boolean[] usedBlocks
Package networkTransfer.receive
- Class networkTransfer.receive.BuoyStatusData
  
  class BuoyStatusData extends Object implements Ser

Serialized Form

Package Acquisition

Class Acquisition.AcquisitionDialog

Serialized Fields

channelListPanelArea

currentChannelListPanel

currentDaqSystem

dcTimeconstant

deviceSpecificPanel

deviceType

mainPanel

nChannels

offlineDAQDialogPanel

ppsDialogPanel

preampGain

sampleRate

standardChannelListPanel

subtractDC

vPeak2Peak

Class Acquisition.AcquisitionParameters

Serialized Fields

channelList

daqSystemType

dcTimeConstant

hydrophoneList

nChannels

ppsParameters

preamplifier

sampleRate

subtractDC

voltsPeak2Peak

Class Acquisition.CheckWavFileHeaders

Serialized Fields

allFiles

checkFilesWorker

doneFiles

folder

folderInputSystem

folderName

nErrors

nFiles

progressBar

ran

running

subFolders

textArea

Class Acquisition.FileInputParameters

Serialized Fields

bitDepth

realTime

recentFiles

repeatLoop

skipStartFileTime

systemType

Class Acquisition.FolderInputParameters

Serialized Fields

mergeFiles

selectedFileNames

subFolders

Class Acquisition.SoundCardParameters

Serialized Fields

deviceNumber

systemType

Package Acquisition.filedate

Class Acquisition.filedate.FileDateDialog

Serialized Fields

additionalOffset

allowCustomFormats

autoFormat

customDateTimeFormat

daylightSaving

forcePCTime

manualFormat

soundTrapDate

standardFileDateSettings

timeZoneIds

timeZones

Class Acquisition.filedate.StandardFileDateSettings

Serialized Fields

additionalOffsetMillis