Re: IMAGEJ Digest - 7 Apr 2009 to 8 Apr 2009 (#2009-96)

[Richard Kollmar]

Dear Bene:

I hate to complain (and you even put the freehand animation back--
thank you!), but after updating, which seemed to work fine, I now get  
two duplicate plugin configuration errors: Mesh Maker and IFT. That  
could, of course, be a peculiarity of my plugin set. Interestingly,  
the update script didn't ask for an admin password--is tthat expected?

Furthermore, the "Record 360 deg Rotation" command doesn't go anywhere  
and hangs ImageJ; the freehand recordings work, however.

I am running ImageJ 1.42k under OS X 10.5.6. Let me know if you need  
more troubleshooting information.

Thanks for any help,

Richard

P.S.: Gruesse an den Hubland--Ich habe bis zum Vordiplom in Wuerzburg  
Chemie studiert.

On Apr 8, 2009, at 11:00 PM, IMAGEJ automatic digest system wrote:

> Date:    Wed, 8 Apr 2009 17:28:16 +0200
> From:    Benjamin Schmid <[hidden email]>
> Subject: Re: 3D viewer plugin error
>
> Dear all,
>
> sorry for my bad responsiveness.
>
> The duplicate command error is not the problem. In fact, this error
> will still occur. The actual problem was that some features of
> the 3D viewer require Java3D >= 1.5. Mac OSX, however, has an older
> version of Java3D pre-installed.
>
> While it is possible to update the Java3D on Mac, it's not really
> conveniant (you have not only to download Java 3D, but also Jogl).
>
> I just uploaded a new version of the 3D viewer, which checks if Java3D
> is available at all, and if, which version. If a version below 1.5 is
> discovered, it offers the user to download automatically a newer
> Java3D and installing it to the correct places. Afterwards, ImageJ has
> to be restarted.
>
> I tested it on the machines I have available here, but since the
> installation process is OS dependant, there may remain problems which
> I have not found so far, therefore I very much appreciate your
> feedback.
>
> Best wishes,
> Bene

--
Richard Kollmar, Ph.D.
Assistant Professor
Dpt. of Molecular & Integrative Physiology and
    Beckman Institute for Advanced Science and Technology
University of Illinois at Urbana-Champaign
427A Burrill Hall
407 S. Goodwin Ave., MC-114
Urbana, IL 61801
Tel. [phone]
FAX [phone]

[Benjamin Schmid-2]

Dear Richard,

> I hate to complain (and you even put the freehand animation back--thank
> you!),
Let me say at this point: I removed it because I thought it were
useless, since it's impossible to get smooth recordings. (And I thought
nobody else is using it anyway). In one of the last updates, I
re-introduced not only the freehand recording, but also keyboard
shortcuts: The arrow keys rotate are used for rotation, page up/down is
used for zooming. (Translation is not implemented so far).

Using this in combination with freehand recording, it is finally
possible to create smooth movies.

> but after updating, which seemed to work fine, I now get two
> duplicate plugin configuration errors: Mesh Maker and IFT. That could, of
> course, be a peculiarity of my plugin set.
Sorry for that, maybe it is due to your plugin configuration, but maybe
it is a due to my jar file. I'll check. In any case, it should not cause
any problems.

> Interestingly, the update
> script didn't ask for an admin password--is tthat expected?
Depends where the Java3D files are stored to. If they are to be stored
to a system folder, it will fail and tell you to run it as admin. If
not (which is the case if your ImageJ is bundled with Java, for
example), you do not need admin permissions. You can see in the log
output to which folder Java3D is installed.

> Furthermore, the "Record 360 deg Rotation" command doesn't go anywhere  
> and hangs ImageJ; the freehand recordings work, however.
I have this problem on one of the computers here, too. Could you edit
ImageJ.cfg (in the ImageJ installation directory) and insert
-Dj3d.noOffScreen=true? It should then look like

-XmxXXXm -Dj3d.noOffScreen=true -cp etc.

This helps in my case, tell me if it works for you, too.

Thanks for your feedback.

Bene

[Benjamin Schmid-2]

Hi again,

> > I hate to complain (and you even put the freehand animation back--thank
> > you!),
> Let me say at this point: I removed it because I thought it were
> useless, since it's impossible to get smooth recordings. (And I thought
> nobody else is using it anyway). In one of the last updates, I
> re-introduced not only the freehand recording, but also keyboard
> shortcuts: The arrow keys rotate are used for rotation, page up/down is
> used for zooming. (Translation is not implemented so far).
>
> Using this in combination with freehand recording, it is finally
> possible to create smooth movies.
>
> > but after updating, which seemed to work fine, I now get two
> > duplicate plugin configuration errors: Mesh Maker and IFT. That could, of
> > course, be a peculiarity of my plugin set.
> Sorry for that, maybe it is due to your plugin configuration, but maybe
> it is a due to my jar file. I'll check. In any case, it should not cause
> any problems.
>
> > Interestingly, the update
> > script didn't ask for an admin password--is tthat expected?
> Depends where the Java3D files are stored to. If they are to be stored
> to a system folder, it will fail and tell you to run it as admin. If
> not (which is the case if your ImageJ is bundled with Java, for
> example), you do not need admin permissions. You can see in the log
> output to which folder Java3D is installed.
>
> > Furthermore, the "Record 360 deg Rotation" command doesn't go anywhere  
> > and hangs ImageJ; the freehand recordings work, however.
> I have this problem on one of the computers here, too. Could you edit
> ImageJ.cfg (in the ImageJ installation directory) and insert
> -Dj3d.noOffScreen=true? It should then look like
>
> -XmxXXXm -Dj3d.noOffScreen=true -cp etc.

Sorry, I just learned that there is no ImageJ.cfg in the Mac version.
I uploaded a version which is modified so it behaves like you changed
ImageJ.cfg.

Bene

[Jos Broers]

Dear Bene,
The 3d viewer now works perfectly on my Mac (OS X.4). Thank you very  
much for all your efforts.
Jos
Op 9-apr-2009, om 14:32 heeft Benjamin Schmid het volgende geschreven:

> Hi again,
>
>>> I hate to complain (and you even put the freehand animation back--
>>> thank
>>> you!),
>> Let me say at this point: I removed it because I thought it were
>> useless, since it's impossible to get smooth recordings. (And I  
>> thought
>> nobody else is using it anyway). In one of the last updates, I
>> re-introduced not only the freehand recording, but also keyboard
>> shortcuts: The arrow keys rotate are used for rotation, page up/
>> down is
>> used for zooming. (Translation is not implemented so far).
>>
>> Using this in combination with freehand recording, it is finally
>> possible to create smooth movies.
>>
>>> but after updating, which seemed to work fine, I now get two
>>> duplicate plugin configuration errors: Mesh Maker and IFT. That  
>>> could, of
>>> course, be a peculiarity of my plugin set.
>> Sorry for that, maybe it is due to your plugin configuration, but  
>> maybe
>> it is a due to my jar file. I'll check. In any case, it should not  
>> cause
>> any problems.
>>
>>> Interestingly, the update
>>> script didn't ask for an admin password--is tthat expected?
>> Depends where the Java3D files are stored to. If they are to be  
>> stored
>> to a system folder, it will fail and tell you to run it as admin. If
>> not (which is the case if your ImageJ is bundled with Java, for
>> example), you do not need admin permissions. You can see in the log
>> output to which folder Java3D is installed.
>>
>>> Furthermore, the "Record 360 deg Rotation" command doesn't go  
>>> anywhere
>>> and hangs ImageJ; the freehand recordings work, however.
>> I have this problem on one of the computers here, too. Could you edit
>> ImageJ.cfg (in the ImageJ installation directory) and insert
>> -Dj3d.noOffScreen=true? It should then look like
>>
>> -XmxXXXm -Dj3d.noOffScreen=true -cp etc.
>
> Sorry, I just learned that there is no ImageJ.cfg in the Mac version.
> I uploaded a version which is modified so it behaves like you changed
> ImageJ.cfg.
>
> Bene