ImageJ - Re: Basic question about ROI positioning by Keyboard Arrows

ImageJ

Re: Basic question about ROI positioning by Keyboard Arrows

Posted by Michael Schmid on Aug 19, 2016; 8:31am
URL: http://imagej.273.s1.nabble.com/Basic-question-about-ROI-positioning-by-Keyboard-Arrows-tp5017053p5017081.html

Hi Mario,

thanks to a hint from Wayne, it can be done without an Overlay.getBounds
macro command. Here is an example:

// This macro allows the user to interactively move an image
// as an overlay and then pastes the image to the position
// selected by the user

run("Blobs (25K)");
run("Copy");
newImage("PasteGoesHere", "8-bit black", 300, 300, 1);
run("Invert LUT"); //to make it fit the Blobs
selectWindow("PasteGoesHere");
run("Add Image...", "image=blobs.gif x=10 y=10 opacity=100");
Overlay.activateSelection(Overlay.size-1);
waitForUser("Move the overlay, then press OK");
Overlay.activateSelection(Overlay.size-1);
Overlay.removeSelection(Overlay.size-1);
run("Paste");
run("Select None");

In contrast to moving a pasted image (which is not possible while a
macro is running), you will see a rectangle around the overlay. I you
like, you can make the rectangle transparent with
run("Overlay Options...", "stroke=#00ffffff width=0 fill=none apply");

Note that you could resize the overlay image with the handles, but the
the macro won't paste a resized image. If you have an 8-bit or RGB
image, you could use 'flatten image' to create an image with the
inserted overlay instead of 'Paste', then you can also resize the image.

Michael
________________________________________________________________
On 2016-08-18 20:47, Michael Schmid wrote:

> Hi Mario,
>
> when a macro is running, the paste operation does not allow moving the
> pasted contents after the paste operation. I guess that this is meant to
> avoid accidentally shifting the contents when a user presses an arrow
> key. This also applies during the 'wait for user' dialog.
>
> I see two ways out:
> (1) stop your macro, and ask the user to continue with another macro
> after pasting and adjusting the position (e.g. with one of the F1...F12
> keys)
> (2) Instead of 'Paste', use an overlay. The user can shift overlays
> during the 'wait for user' dialog. Then determine the position of the
> overlay, remove it, create a rectangle there and paste the image into
> that place. Unfortunately, it seems there is no Overlay.getBounds(index,
> x, y, width, height) macro command, you would have to decode the
> getInfo("overlay") string, which is not very nice.
>
> Here is a proof-of-concept macro:
> run("Blobs (25K)");
> w=getWidth();
> h=getHeight();
> newImage("PasteGoesHere", "8-bit white", 300, 300, 1);
> selectWindow("blobs.gif");
> selectWindow("PasteGoesHere");
> run("Add Image...", "image=blobs.gif x=10 y=10 opacity=100");
> Overlay.activateSelection(Overlay.size-1);
> waitForUser("Move the overlay, then press OK");
> getInfo("overlay");
>
> Michael
> ________________________________________________________________
>
> On 2016-08-18 18:57, Mario Faretta wrote:
>> HI Michael,
>> thanks for the useful info.
>> The operations I described should occur during a macro execution: the
>> macro pastes an image into a calculated position, then, by calling the
>> waitForUser() function, the macro execution is suspended. The user can
>> consequently correct the positioning if necessary before the macro goes
>> on. I am not an expert so I was wondering if in these conditions the
>> ROI.endPaste is automatically called.
>> Thanks again for the help
>> Mario
>>
>> I am not a programmer
>> On 2016-08-18 18:05, Michael Schmid wrote:
>>> Hi Mario,
>>>
>>> after pasting an image or image part, you should be able to move the
>>> pasted contents it until
>>> - you select a different image or a panel such as B&C
>>> (Brightness&Contrast) [the Threshold panel seems to do no harm], or
>>> - you do something that deletes the ROI, e.g. by clicking outside of
>>> it, or
>>> - there is something that modifies or could potentially modify your
>>> image.
>>>
>>> Technically speaking, for the last point, e.g. everything that
>>> implements the PlugInFilter interface causes a call to Roi.endPaste.
>>> This includes not only image modification operations but also many
>>> read-only operations, such as image analysis and saving.
>>>
>>> If you lose the capability to move the ROI contents after a paste
>>> operation without any obvious reason, what ImageJ & Java version and
>>> operating system do you have?
>>> (I have not seen such a problem with my computer so far, using ImageJ
>>> 1.51f; Java 1.6.0_65 [64-bit]; Mac OS X 10.6.8)
>>>
>>> Michael
>>> ________________________________________________________________
>>> On 2016-08-18 12:47, mfaretta wrote:
>>>> Hi everyone,
>>>> I have a very simple question about moving a rectangular ROI in an
>>>> image
>>>> using the keyboard.
>>>> The idea is to set the correct position where a second image has to be
>>>> pasted (in the first one).
>>>> Sometimes by using arrow keys I can move the selection to x and y
>>>> negative coordinate obtaining the correct positioning of the pasted
>>>> image.
>>>> However some other times after pasting the image and pressing the
>>>> arrows, I can only move the selection (and not the pasted image) until
>>>> the border without reaching negative values.
>>>> Thanks for the help
>>>> Mario
>>>>
>>>> Mario Faretta
>>>> Department of Experimental Oncology
>>>> European Institute of Oncology
>>>> via Adamello 16
>>>> 20139 Milan
>>>> Italy
>>>> Phone: +390294375027
>>>> email: [hidden email]
>>>>
>>>>
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>>
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