endrov.typeLineage.expression
Class IntegrateExp

java.lang.Object
  endrov.typeLineage.expression.IntegrateExp

public class IntegrateExp
extends java.lang.Object

All integrations are done at the same time to reduce disk I/O. Images not needed are discarded through lazy evaluation. Background is subtracted. This only affects the first frame, but sets a proper 0. COULD put background into first frame of correction instead. Is this better? The cubemap contains too much data for the lineage window. 20x20x20=8000 tracks, impossible. also EATS space, especially if stored as XML. So, it has to be stored as images. Originally as channel "mod-GFP". Overlap is not possible due to reorientation. Frame-time remap will not be done until assembly.

Nested Class Summary

static interface	IntegrateExp.Integrator Integrator of expression.
static interface	IntegrateExp.IntegratorCallback

Field Summary

EvChannel	ch
int	curZint
java.lang.String	expName
EvDecimal	frame
EvImagePlane	im
EvContainer	imset
EvPixels	pixels
int[]	pixelsLine
static Lineage	refLin
EvStack	stack

Constructor Summary

IntegrateExp(EvContainer imset, EvChannel ch, java.lang.String expName)

Method Summary

void	ensureImageLoaded() Lazily load images
void	integrateAll(IntegrateExp.IntegratorCallback callback, java.util.Collection<IntegrateExp.Integrator> ints) Run all integrators
void	integrateAll(IntegrateExp.IntegratorCallback callback, IntegrateExp.Integrator... ints) Run all integrators
static void	integrateSingleCell(Lineage lin, EvContainer imset, EvChannel ch, java.lang.String expName, IntegrateExp.IntegratorCallback cb, boolean useNucleiRadius) Integrate single-cell for one recording

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

refLin

public static Lineage refLin

frame

public EvDecimal frame

curZint

public int curZint

stack

public EvStack stack

im

public EvImagePlane im

pixels

public EvPixels pixels

pixelsLine

public int[] pixelsLine

expName

public java.lang.String expName

ch

public EvChannel ch

imset

public EvContainer imset

Constructor Detail

IntegrateExp

public IntegrateExp(EvContainer imset,
                    EvChannel ch,
                    java.lang.String expName)

Method Detail

ensureImageLoaded

public void ensureImageLoaded()

Lazily load images

integrateAll

public void integrateAll(IntegrateExp.IntegratorCallback callback,
                         java.util.Collection<IntegrateExp.Integrator> ints)

Run all integrators

integrateAll

public void integrateAll(IntegrateExp.IntegratorCallback callback,
                         IntegrateExp.Integrator... ints)

Run all integrators

integrateSingleCell

public static void integrateSingleCell(Lineage lin,
                                       EvContainer imset,
                                       EvChannel ch,
                                       java.lang.String expName,
                                       IntegrateExp.IntegratorCallback cb,
                                       boolean useNucleiRadius)

Integrate single-cell for one recording