Field Detail

• UNINIT

  @Expose
  public static final int UNINIT

  Fields with this value are uninitialized

  See Also:

  Constant Field Values

• xInc

  @Expose
  public float xInc

  The time increment between two consecutive data points

• trans

  public float[] trans

  The transient data to fit

• ltAxis

  @Expose
  public int ltAxis

  The index of lifetime axis

• transMap

  public RandomAccessibleInterval<I extends RealType<I>> transMap

  The image representation of the dataset

• roiMask

  public RealMask roiMask

  The ROI mask (test() returns true on interested regions)

• fitStart

  @Expose
  public int fitStart

  The start of the decay interval

• fitEnd

  @Expose
  public int fitEnd

  The end of the decay interval

• instr

  @Expose
  public float[] instr

  The array of instrument response (optional)

• noise

  @Expose
  public NoiseType noise

  The assumed noise model of the fit (Poisson by default) @see NoiseType

• sig

  @Expose
  public float[] sig

  The standard deviation (sigma) of the data, used for calculating chi-squared if noise is NoiseType.NOISE_CONST or NoiseType.NOISE_GIVEN.

• nComp

  @Expose
  public int nComp

  The number of exponential components of the fit (1 by default). This parameter is only used by LMA and Global ops, ignored otherwise.

• param

  @Expose
  public float[] param

  The estimated parameters of the fit (global setting)

• paramMap

  public RandomAccessibleInterval<FloatType> paramMap

  The image representation of the estimated parameters the fit (per-pixel setting, overides param)

• paramFree

  @Expose
  public boolean[] paramFree

  The indicators of which of the parameters can be changed

• restrain

  @Expose
  public RestrainType restrain

  The fit restraint (RestrainType.ECF_RESTRAIN_DEFAULT by default)

• restraintMin

  @Expose
  public float[] restraintMin

  The fit restraints (min or max) for each parameter. A parameter at index i will be restrained during the fit in the range (restraintMin[i], restraintMax[i]). If any of the two bounds are not present (due to the array being null or [i] == NaN), then -/+Inf is used instead and that parameter will not be bounded from below/above. The bounds only take effect if restrain is set to RestrainType.ECF_RESTRAIN_USER.

• restraintMax

  @Expose
  public float[] restraintMax

  The fit restraints (min or max) for each parameter. A parameter at index i will be restrained during the fit in the range (restraintMin[i], restraintMax[i]). If any of the two bounds are not present (due to the array being null or [i] == NaN), then -/+Inf is used instead and that parameter will not be bounded from below/above. The bounds only take effect if restrain is set to RestrainType.ECF_RESTRAIN_USER.

• fitFunc

  @Expose
  public FitFunc fitFunc

  The fitting model to use (Z + A_1e^(-t/tau_1) + A_2e^(-t/tau_2) + ... by default)

• chisq_target

  @Expose
  public float chisq_target

  Stopping condition 1: stop if reduced chi-squared is less than chisq_target (1 by default)

• chisq_delta

  @Expose
  public float chisq_delta

  Stopping condition 2: stop if change in chi-squared is less than chisq_target (1E-4 by default)

• chisq_percent

  @Expose
  public int chisq_percent

  Confidence interval when calculating the error axes (95% by default)

• iThresh

  @Expose
  public float iThresh

  Intensity threshold value (overrides iThreshPercent)

• iThreshPercent

  @Expose
  public float iThreshPercent

  Intensity threshold percentage

• multithread

  @Expose
  public boolean multithread

  Enable multithread fitting (true by default)

• dropBad

  @Expose
  public boolean dropBad

  Whether to declare FitResults.retCode as FitResults.RET_BAD_FIT_CHISQ_OUT_OF_RANGE or FitResults.RET_BAD_FIT_DIVERGED if FitResults.chisq is larger than 1e5 or less than 0.

• getReturnCodeMap

  @Expose
  public boolean getReturnCodeMap

  Whether to generate an image representation for the return codes (false by default)

• getParamMap

  @Expose
  public boolean getParamMap

  Whether to generate an image representation for fitted parameters (true by default)

• getFittedMap

  @Expose
  public boolean getFittedMap

  Whether to generate an image representation for fitted transients (false by default)

• getResidualsMap

  @Expose
  public boolean getResidualsMap

  Whether to generate an image representation for residuals (false by default)

• getChisqMap

  @Expose
  public boolean getChisqMap

  Whether to generate an image representation for chi-squred (false by default)

Constructor Detail

• FitParams

  public FitParams()

Method Detail

• copy

  public FitParams<I> copy()

  Create a new instance of FitParams with shallow copy (maps are not duplicated).

  Returns:

  A clone of the current instance.

• toJSON

  public String toJSON()

  Serialize this FitParams into a JSON string. trans, transMap, roiMask, and paramMap are skipped.

  Returns:

  the JSON string

• fromJSON

  public static <I extends RealType<I>> FitParams<I> fromJSON(String jsonString)

  Creates a FitParams from serialized JSON string.

  Type Parameters:

  I - data type

  Parameters:

  jsonString - the JSON string produced by toJSON()

  Returns:

  the serialized parameters

• toString

  public String toString()

  Overrides:

  toString in class Object