Don't see images after upgrading to Ubuntu 12.04

[Ned Horning]

Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
worked fine) and now when I run ImageJ or Fiji images do not appear
after I open them. When I look under the Window menu I see the image is
open but it doesn't appear on my screen. Dialog and log window are
visible but not images. I'm using Fiji version 20110609162900. I have
the same problem running ImageJ with Java-6-OpenJDK from Eclipse

Any idea what I'm doing wrong?

Ned

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[dscho]

Hi,

On Fri, 27 Jul 2012, Ned Horning wrote:

> Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
> worked fine) and now when I run ImageJ or Fiji images do not appear after I
> open them. When I look under the Window menu I see the image is open but it
> doesn't appear on my screen. Dialog and log window are visible but not images.
> I'm using Fiji version 20110609162900. I have the same problem running ImageJ
> with Java-6-OpenJDK from Eclipse

I think it is an issue with OpenJDK 6. Have you tried Oracle Java 6 (in my
experience, Update 24 is much more stable than Update 33 which crashes a
lot) or OpenJDK 7?

Ciao,
Johannes

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Birgit Möller]

Hi Ned,
we sometimes faced the problem that images are opened, but automatically zoomed to minimum size. Then the images have a size of one pixel, and the ImageJ windows are correspondingly small. They are really hard to find on the desktop! Probably it is the same for you. This would at least explain why your images appear in the window menu, but you do not see them. We could not find an explanation for that effect, the problem was quite non-deterministic. For the moment the problem seems to have been disappeared in our setup, but we do not really know why... We are currently running Ubuntu 11.04, 64-bit, and Oracle Java 6, Update 26, and we are not using Fiji, but plain ImageJ in version 1.46g.
Best regards,

 Birgit


On Fri, 27 Jul 2012 13:47:09 -0400, Ned Horning <[hidden email]> wrote:

>Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
>worked fine) and now when I run ImageJ or Fiji images do not appear
>after I open them. When I look under the Window menu I see the image is
>open but it doesn't appear on my screen. Dialog and log window are
>visible but not images. I'm using Fiji version 20110609162900. I have
>the same problem running ImageJ with Java-6-OpenJDK from Eclipse
>
>Any idea what I'm doing wrong?
>
>Ned
>
>--
>ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Ned Horning]

Hi Johannes and Birgit,

Thanks for your input. I am able to get ImageJ and Fiji running using
jdk1.6.0_24. I tried Java 7 (OpenODK and Oracle) but those didn't work
either.

I am familiar with the problem of an image appearing as a single pixel
but I didn't even see that. It's possible the one-pixel image was under
the Unity application launcher.

Thanks again for the help.

Ned

On 07/30/2012 03:41 AM, Birgit Möller wrote:
> Hi Ned,
> we sometimes faced the problem that images are opened, but automatically zoomed to minimum size. Then the images have a size of one pixel, and the ImageJ windows are correspondingly small. They are really hard to find on the desktop! Probably it is the same for you. This would at least explain why your images appear in the window menu, but you do not see them. We could not find an explanation for that effect, the problem was quite non-deterministic. For the moment the problem seems to have been disappeared in our setup, but we do not really know why... We are currently running Ubuntu 11.04, 64-bit, and Oracle Java 6, Update 26, and we are not using Fiji, but plain ImageJ in version 1.46g.
> Best regards,
>
>   Birgit

On 07/27/2012 06:23 PM, Johannes Schindelin wrote:

> Hi,
>
> On Fri, 27 Jul 2012, Ned Horning wrote:
>
>> Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
>> worked fine) and now when I run ImageJ or Fiji images do not appear after I
>> open them. When I look under the Window menu I see the image is open but it
>> doesn't appear on my screen. Dialog and log window are visible but not images.
>> I'm using Fiji version 20110609162900. I have the same problem running ImageJ
>> with Java-6-OpenJDK from Eclipse

>
> On Fri, 27 Jul 2012 13:47:09 -0400, Ned Horning<[hidden email]>  wrote:
>
>> Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
>> worked fine) and now when I run ImageJ or Fiji images do not appear
>> after I open them. When I look under the Window menu I see the image is
>> open but it doesn't appear on my screen. Dialog and log window are
>> visible but not images. I'm using Fiji version 20110609162900. I have
>> the same problem running ImageJ with Java-6-OpenJDK from Eclipse
>>
>> Any idea what I'm doing wrong?
>>
>> Ned
>>
>> --
>> ImageJ mailing list:http://imagej.nih.gov/ij/list.html
>
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

[Michael Schmid]

Hi Ned and other Ubuntu users,

to diagnose the problem, you could try switching debug mode on (Edit>Options>Misc).
Then you should see something like this in the Log window when creating a new window:

getMaxWindow: java.awt.Rectangle[x=0,y=0,width=1680,height=1050]  0,0

I suspect that the size given there is wrong.

Please also have a look at the screen size under Plugins>Utilities>ImageJ Properties.
If this gives the correct screen size, one might consider implementing a workaround in ImageJ:
If the 'getMaxWindow' rectangle is invalid, one could guess such a rectangle from IJ.getScreenSize() minus a few pixels in height.

Michael
________________________________________________________________
On Jul 30, 2012, at 20:13, Ned Horning wrote:

> Hi Johannes and Birgit,
>
> Thanks for your input. I am able to get ImageJ and Fiji running using jdk1.6.0_24. I tried Java 7 (OpenODK and Oracle) but those didn't work either.
>
> I am familiar with the problem of an image appearing as a single pixel but I didn't even see that. It's possible the one-pixel image was under the Unity application launcher.
>
> Thanks again for the help.
>
> Ned
>
> On 07/30/2012 03:41 AM, Birgit Möller wrote:
>> Hi Ned,
>> we sometimes faced the problem that images are opened, but automatically zoomed to minimum size. Then the images have a size of one pixel, and the ImageJ windows are correspondingly small. They are really hard to find on the desktop! Probably it is the same for you. This would at least explain why your images appear in the window menu, but you do not see them. We could not find an explanation for that effect, the problem was quite non-deterministic. For the moment the problem seems to have been disappeared in our setup, but we do not really know why... We are currently running Ubuntu 11.04, 64-bit, and Oracle Java 6, Update 26, and we are not using Fiji, but plain ImageJ in version 1.46g.
>> Best regards,
>>
>>  Birgit
>
> On 07/27/2012 06:23 PM, Johannes Schindelin wrote:
>> Hi,
>>
>> On Fri, 27 Jul 2012, Ned Horning wrote:
>>
>>> Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
>>> worked fine) and now when I run ImageJ or Fiji images do not appear after I
>>> open them. When I look under the Window menu I see the image is open but it
>>> doesn't appear on my screen. Dialog and log window are visible but not images.
>>> I'm using Fiji version 20110609162900. I have the same problem running ImageJ
>>> with Java-6-OpenJDK from Eclipse
>
>>
>> On Fri, 27 Jul 2012 13:47:09 -0400, Ned Horning<[hidden email]>  wrote:
>>
>>> Hi - I just upgraded to Ubuntu 12.04 64 bit (from 10.04 where everything
>>> worked fine) and now when I run ImageJ or Fiji images do not appear
>>> after I open them. When I look under the Window menu I see the image is
>>> open but it doesn't appear on my screen. Dialog and log window are
>>> visible but not images. I'm using Fiji version 20110609162900. I have
>>> the same problem running ImageJ with Java-6-OpenJDK from Eclipse
>>>
>>> Any idea what I'm doing wrong?
>>>
>>> Ned
>>>
>>> --
>>> ImageJ mailing list:http://imagej.nih.gov/ij/list.html
>>
>>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html