http://imagej.273.s1.nabble.com/re-position-ROIs-at-certain-stacks-tp5006379p5006411.html
But can the ROI repositioning be done automatically by somehow calling one
time, and one often finds only workarounds. Don't a lot of people track
> I had thought about this in the past while doing FRAP experiments and
> after the start of this macro by Jan Brocher have used his code as basis
> for a macro that when you move the ROI it automatically updates the ROI for
> all following images in the stack and moves automatically to the next image
> in the stack.
>
> You can change the sensitivity of the repositioning of the ROI by changing
> the wait(350) at line 61 of the code.
>
> Not extensively tested but seems to work.
>
> Best wishes
>
> Kees
>
> Dr Ir K.R. Straatman
> Senior Experimental Officer
> Centre for Core Biotechnology Services
> University of Leicester
>
>
http://www2.le.ac.uk/colleges/medbiopsych/facilities-and-services/cbs/lite/aif(notice new website!)
>
>
>
>
> -----Original Message-----
> From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Jan
> Brocher - BioVoxxel
> Sent: 04 February 2014 10:10
> To:
[hidden email]
> Subject: Re: re position ROIs at certain stacks
>
> Hi Pablo, hi Jacob
>
> potentially you can check the following macro. It might do, what you need.
> I simply put it together quickly, so if there is a problem contact me
> again.
>
> What you have to do:
>
> 1.) draw the ROI you want to put into the image
> 2.) choose the color of the ROI using the color picker tool
> 3.) run the macro I attached here
> 4.) go through your slices and if you need to manually move a selection do
> the following
> 5.) keep [Alt] pressed and click inside your ROI (thus you reactivate
> it
> 6.) move it or change its appearance
> 7.) click somewhere outside the ROI to add it back to the overlay
> layer
> 8.) press Ok in the small dialog box
>
> --> This will add all the ROIs to teh ROI-Manager and using this one you
> can select >More >Multi Measure with the choice to measure all slices
> active and you will get the analyses of all the ROIs in all slices in teh
> results table.
>
>
> Macro code:
>
> /**Macro written by Jan Brocher/BioVoxxel
> * NO WARRENTY of functionality and no liability for any damages.
> */
>
> getDimensions(width, height, channels, slices, frames); Dialog.create("ROI
> setup");
> Dialog.addChoice("label:", newArray( "frames", "slices",
> "channels"), "frames");
> Dialog.show();
> dimension = Dialog.getChoice();
>
> color = toHex(getValue("rgb.foreground"));
>
> run("Overlay Options...", "stroke="+color+" width=0 fill=none set");
>
> setBatchMode(true);
> if(dimension=="frames") {
> if(frames<2) {
> exit("no multiple frames available");
> } else {
> toLabel = frames;
> }
> } else if(dimension=="slices") {
> if(slices<2) {
> exit("no multiple slices available");
> } else {
> toLabel = slices;
> }
> } else if(dimension=="channels") {
> if(channels<2) {
> exit("no multiple channels available");
> } else {
> toLabel = channels;
> }
> }
>
> roiManager("reset");
> for(i=1; i<=toLabel; i++) {
> if(dimension=="frames") {
> Stack.setFrame(i);
> } else if(dimension=="slices") {
> Stack.setSlice(i);
> } else if(dimension=="channels") {
> Stack.setChannel(i);
> }
>
>
> run("Add Selection...");
> }
>
> //reset Stack position
> if(dimension=="frames") {
> Stack.setFrame(1);
> } else if(dimension=="slices") {
> Stack.setSlice(1);
> } else if(dimension=="channels") {
> Stack.setChannel(1);
> }
>
> setBatchMode(true);
> //enable manual adjustments to the individual ROIs waitForUser("adjust
> overlays and press Ok"); run("To ROI Manager"); exit();
>
> //end of macro---------------------------------------------
>
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