Overlaying a Stack

[Nick Vitale]

Hey ImageJ people, I've been trying to add a simple arrow using the arrow tool and overlaying the selection, however when I compress it to a movie the arrow does not show up? How do I get overlays to show up in my movies?

[Wayne Rasband-2]

> Hey ImageJ people, I've been trying to add a simple arrow using the
> arrow tool and overlaying the selection, however when I compress it
> to a movie the arrow does not show up? How do I get overlays to
> show up in my movies?

The File>Save As>AVI command in the 1.44b daily build preserves overlays.

-wayne

[Gaurav Joshi]

Surprisingly I have the same problem too. I have saved my stack using  
File>Save as>avi command but end up losing my overlaid stack.
I have also tried saving my stack as individual images and in these  
individual images too have lost overlaid text.

However the Image>stacks>label works pretty well and text (time  
values) is not lost when stack is converted to individual images or to  
a movie.

Gaurav.


On May 19, 2010, at 12:23 AM, Wayne Rasband wrote:

>> Hey ImageJ people, I've been trying to add a simple arrow using the
>> arrow tool and overlaying the selection, however when I compress it
>> to a movie the arrow does not show up? How do I get overlays to
>> show up in my movies?
>
> The File>Save As>AVI command in the 1.44b daily build preserves  
> overlays.
>
> -wayne

[Knecht, David]

But the daily build does not work with Quicktime save.  Maybe we need a flatten command in teh Stacks/Label or allow the flatten command in Overlay to work with stacks?  Dave

On May 19, 2010, at 12:23 AM, Wayne Rasband wrote:

>> Hey ImageJ people, I've been trying to add a simple arrow using the
>> arrow tool and overlaying the selection, however when I compress it
>> to a movie the arrow does not show up? How do I get overlays to
>> show up in my movies?
>
> The File>Save As>AVI command in the 1.44b daily build preserves overlays.
>
> -wayne

Dr. David Knecht    
Department of Molecular and Cell Biology
Co-head Flow Cytometry and Confocal Microscopy Facility
U-3125
91 N. Eagleville Rd.
University of Connecticut
Storrs, CT 06269
860-486-2200
860-486-4331 (fax)

[Rasband, Wayne (NIH/NIMH) [E]]

On May 19, 2010, at 9:48 AM, David Knecht wrote:

> But the daily build does not work with Quicktime save.  Maybe we need a flatten command in teh Stacks/Label or allow the flatten command in Overlay to work with stacks?  Dave

There is an updated QuickTime_Plugins.jar at

    http://rsbweb.nih.gov/ij/plugins/movie-writer.html

that includes a QuickTime_Writer plugin (File>Save As>QuickTime Movie command) that preserves overlays.

-wayne

> On May 19, 2010, at 12:23 AM, Wayne Rasband wrote:
>
>>> Hey ImageJ people, I've been trying to add a simple arrow using the
>>> arrow tool and overlaying the selection, however when I compress it
>>> to a movie the arrow does not show up? How do I get overlays to
>>> show up in my movies?
>>
>> The File>Save As>AVI command in the 1.44b daily build preserves overlays.
>>
>> -wayne
>
> Dr. David Knecht    
> Department of Molecular and Cell Biology
> Co-head Flow Cytometry and Confocal Microscopy Facility
> U-3125
> 91 N. Eagleville Rd.
> University of Connecticut
> Storrs, CT 06269
> 860-486-2200
> 860-486-4331 (fax)