Update complete 4D volume of the dataset, a wrapper function. More...

Functions
function	ib_setDataset (type, dataset, handles, orient, col_channel, options)
	Update complete 4D volume of the dataset, a wrapper function. More...

Detailed Description

Update complete 4D volume of the dataset, a wrapper function.

Function Documentation

function ib_setDataset	(	type,
		dataset,
		handles,
		orient,
		col_channel,
		options
	)

Update complete 4D volume of the dataset, a wrapper function.

This is a wrapper function, it uses the functions of the imageData class to update the whole volume in the dataset. When ROIs regions are shown in the axes (handles.roiShowCheck checkbox) the function updates only those ROI areas.

Attention: The input value is an array of cells!

Parameters

type	a type of the image to update, 'image', 'model', 'selection', 'mask', 'everything' (for imageData.model_type=='uint6' only)
dataset	a cell array with the datasets dataset{roiId}(1:height, 1:width, 1:color, 1:z); roiId=1 when one or no ROI
handles	handles structure of im_browser.m
orient	[optional], can be NaN or empty when 0 (default) returns the dataset transposed to the current orientation (obj.orientation) when 1 returns transposed dataset to the zx configuration: [y,x,c,z] -> [x,z,c,y] when 2 returns transposed dataset to the zy configuration: [y,x,c,z] -> [y,z,c,y] when 3 not used when 4 returns original dataset to the yx configuration: [y,x,c,z] when 5 not used
col_channel	[optional], when type is `image`, col_channel is a vector with color numbers to update, when NaN [default] update set the colors selected in the imageData.slices{3} variable; when 0 - update all colors of the dataset. when type is `model` col_channel may be NaN - to update all materials of the model or an integer to update specific material.
options	a structure with extra parameters .blockModeSwitch -> override the block mode switch imageData.blockModeSwitch 0 update full dataset / 1 - update cropped dataset .fillBg -> when NaN (default) -> crop slice with respect to the roi shape; when .fillBg is 1 update as a rectangle area .roiId -> index of roi to use; when 0 - update all shown ROIs. Also it is possible to define ROI by its label as string .t -> current, time point to get a 3D dataset

Required fields of handles:

Required fields of options:

Examples:

ib_setDataset('image', dataset, handles); // update the whole stack in the shown orientation

ib_setDataset('image', dataset, handles, 4, 2); // update the whole stack in yx orientation for color channel=2

ib_setDataset('model', dataset, handles, NaN, NaN, options.blockModeSwitch=1); // update the part of the whole model stack visible in the viewing window

ib_setDataset('model', dataset, handles, NaN, NaN, NaN, options.roiId=1); // when handles.roiShowCheck enabled - update the part of the whole model stack visible under ROI number 1

Referenced by ib_moveLayers(), ib_removeBackground(), ib_segmentation_SmartWatershed(), menuMaskInvert(), menuSelectionInvert(), ibMorphOpsGui>continueBtn_Callback(), and ManGridBW>startBtn_Callback().

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Detailed Description

Function Documentation