Hi Herbie,
It should be:
run("Images to Stack","name=Seeds title=#");
setBatchMode(false);
exit();
Best wishes
Kees
Advanced Imaging Facility (RRID: SCR_020967)
University of Leicester
http://www.le.ac.uk/advanced-imaging-facility
-----Original Message-----
Sent: 23 January 2025 12:56
Subject: Re: can't rotate pasted image
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Dear Jeremy,
dear listers!
Attached please find my macro with the mechanism suggested by Jeremy!
Interestingly, I wasn't able to make it work properly with
run("Images to Stack","name=Seeds title=#");
setBatchMode(true);
exit();
instead of
setBatchMode("exit and display");
run("Images to Stack","name=Seeds title=#");
exit();
In the former case, all slices are magically doubled.
Regards
Herbie
:::::::::::::::::::::::::::::::::::::::::
Am 22.01.25 um 18:32 schrieb Jeremy Adler:
> A slightly simpler variant on Herbie's macro.
>
> Once you have a selection for single objects, use "Fit Rectangle" and then
> duplicate.
> The duplicated part of the image is rotated.
>
> Jeremy
> ===============================================
> B i o V i s P l a t f o r m of Uppsala University
> Light & EM microscopy / FlowCytometry & Cell
> Sorting / Image Analysis ===============================================
> Jeremy Adler PhD - Senior research engineer
> Light, Confocal Microscopy, Image Analysis
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> -----Original Message-----
> From: Herbie <[email protected]>
> Sent: Wednesday, January 22, 2025 3:57 PM
> To: [email protected]
> Subject: Re: can't rotate pasted image
>
> Slightly off-topic William!
>
> Some years ago I was asked to write a macro that performs this task on rice
> seeds.
>
> Attached please find the "revived" macro-code and a test-image.
> The macro requires two ImageJ-plugins.
>
> Good to hear you resolved the Java-problem.
>
> Regards
>
> Herbie
>
> :::::::::::::::::::::::::::::::::::::::::
> Am 22.01.25 um 13:04 schrieb William Rust:
>> I'm writing code in java. What I am trying to do is take an image
>> with
>> 20 wheat kernels in a petri dish and put each kernel in its own image
>> with the kernel rotated so all kernels are roughly vertical. Here's
>> the code snippet where I am doing it.
>>
>> ImageProcessor newIp = new ColorProcessor(300, 300);
>> ImagePlus newImp = new ImagePlus("sub " + idx, newIp);
>> newIp.setColor(background);
>> newIp.fill();
>> imp.copy();
>> newImp.paste();
>> newImp.getProcessor().rotate(angle[idx]);
>> newImp.updateAndDraw();
>> newImp.show();
>>
>>
>> Previously, I've cut the subimage out of the original image using the
>> bounding box from analyze particles. The weirdness occurs somewhere
>> between the paste and the rotate. The pasting works whether I do the rotate
>> or not.
>> But when I paste, the rotate does not work. And, if I don't paste,
>> the rotate does work (I can tell this because the background is
>> tilted after a rotate with no paste but not with rotate and paste).
>> This snippet shows one of the things that I've tried, the updateAndDraw(),
>> but nothing has worked.
>> Any ideas on what I'm doing wrong?
>>
>> Thanks,
>>
>> wjr.
>
>
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