http://imagej.273.s1.nabble.com/Help-needed-with-3D-Viewer-tp5008273p5008795.html
> solution should still be in place. I will file a bug report because it
> Hi Curtis
> thanks a lot for getting back once more.
> About the 3D Viewer: I am not too worried about it any more, ever since I
> found out that it works perfect, when I use the arrow keys for shifting
> instead of the mouse. The fact that I can see the same behaviour on an old
> 2 core system with onboard graphics and on the most modern workstation we
> have, makes it seem less likely that it would be a graphics driver problem
> though.
> Second, the save preference problem: Good that you mention the solution
> should still be in place. I will file a bug report because it is not taking
> effect on my Fiji 1.49b though I did set the environment variable.
> Thanks so much for all your work.
> Best regards
> Christian
>
>
> ---
> Christian Goosmann
> Mikroskopie
> Max-Planck-Institut für Infektionsbiologie
> Campus Charité Mitte
> Charitéplatz 1
> 10117 Berlin
> Tel.: +49 30 28460 388
>
> Curtis Rueden wrote:
>
>> Hi Christian,
>>
>> > Can you confirm from reading the console output, whether I did the
>> > diagnose mode right? If not, how do I use the command line correctly?
>>
>> Unfortunately, not really. I am not an expert on the 3D Viewer code. That
>> wiki page I linked before covers more than I know personally.
>>
>> > It seems that 3D-Viewer is unable to read the ImageJ_3D_Viewer.props
>> > file. The reason is probably that I work in a network with remote
>> > storage of the personal profile.
>>
>> Can't you use "Map network drive" to assign a drive letter to that share,
>> so that it behaves more like a local filesystem as far as your applications
>> are concerned? This will especially help Java applications like ImageJ!
>>
>> > In this case, the Java function "system.get.property(user.home)"
>> > returns nonsense. Unfortunately, Fiji uses this java function to
>> > determine where to write some user settings. Johannes and Stefan
>> > discussed this in Bug 187 and implemented a clever function that would
>> > allow the user to specify a storage folder for settings through an
>> > environment variable. This function from 2010 has been missing in all
>> > more modern versions of Fiji since a year or so.
>>
>> Actually, the function to which you refer -- setting the IJ_PREFS_DIR to
>> override where settings are stored -- is still supposed to work:
>>
>>
https://github.com/imagej/ij1-patcher/blob/ij1-patcher-0.10.
>> 0/src/main/java/net/imagej/patcher/LegacyExtensions.java#L215-L222
>>
>> If you are setting that environment variable and it is not taking effect,
>> please file a bug using Help > Report a Bug.
>>
>> > I would assume that 3D Viewer uses default settings as soon as the
>> > file cannot be read and so I am a bit doubtful whether this issue
>> > would be the reason for the strange behavior of 3DViewer.
>>
>> I agree; I am skeptical of the preferences issue being the cause. More
>> likely is an issue with your graphics card driver. I assume the "Test
>> Java3D" plugin works? (
http://fiji.sc/Test_Java3D)
>>
>> Is there a newer graphics card driver you can install? Or if you boot
>> with a Linux live CD such as Ubuntu Desktop, can you use the 3D Viewer
>> successfully in that environment?
>>
>> Regards,
>> Curtis
>>
>>
>> On Thu, Jun 26, 2014 at 8:36 AM, Christian Goosmann <
>>
[hidden email] <mailto:
[hidden email]>>
>> wrote:
>>
>> ||Hi Curtis,
>> thanks for responding. Cool that I was not the only one
>> experiencing this. Next time I will search the bug tracker too and
>> not just the list. I did try to get the debugging mode to run and
>> I got some output I don't really know how to interpret. Here's the
>> content of the console window from the starting command until
>> opening 3D Viewer from Fijis plugin menu.
>>
>> ImageJ-win32.exe -Dj3d.debug=true-- --console
>>
>> d:\Fiji Backup\fiji-lifeline02jun14\Fiji.app>[INFO] Found 677
>> plugins.
>> log4j:WARN No appenders could be found for logger
>> (org.bushe.swing.event.EventSe
>> rvice).
>> log4j:WARN Please initialize the log4j system properly.
>> log4j:WARN See
>>
http://logging.apache.org/log4j/1.2/faq.html#noconfig for more in
>> fo.
>> [INFO] Found 11 DataType plugins.
>> [INFO] Found 2 Platform plugins.
>> [INFO] Configuring platform:
>> org.scijava.plugins.platforms.windows.WindowsPlatfo
>> rm
>> [INFO] Configuring platform: org.scijava.platform.DefaultPlatform
>> [INFO] Found 0 scripts
>> [WARNING] Overridden plugin ij.plugin.AboutBox is blacklisted
>> [WARNING] Overridden plugin ij.plugin.LutLoader("3-3-2 RGB") is
>> blacklisted
>> [WARNING] Overridden plugin ij.plugin.Commands("quit") is blacklisted
>> [INFO] Found 668 legacy plugins (plus 147 ignored).
>> [INFO] Found 22 InputWidget plugins.
>> version = 1.5
>> \\fileserver\profiles$\Desktop\.ImageJ_3D_Viewer.props (Das System
>> kann die ange
>> gebene Datei nicht finden)
>> nFrames = 1
>>
>> Can you confirm from reading the console output, whether I did the
>> diagnose mode right? If not, how do I use the command line correctly?
>> It seems that 3D-Viewer is unable to read the
>> ImageJ_3D_Viewer.props file. The reason is probably that I work in
>> a network with remote storage of the personal profile. In this
>> case, the Java function "system.get.property(user.home)" returns
>> nonsense. Unfortunately, Fiji uses this java function to determine
>> where to write some user settings. Johannes and Stefan discussed
>> this in Bug 187 and implemented a clever function that would allow
>> the user to specify a storage folder for settings through an
>> environment variable. This function from 2010 has been missing in
>> all more modern versions of Fiji since a year or so. It hasn't
>> created serious problems, because I haven't run into anything yet
>> that just doesn't work without the saved settings.
>>
>> I would assume that 3D Viewer uses default settings as soon as the
>> file cannot be read and so I am a bit doubtful whether this issue
>> would be the reason for the strange behavior of 3DViewer. When I
>> have the time I shall try to reproduce on a machine in local mode
>> where Fiji is able to save the settings. If that should do the
>> trick I will let you guys know and send a new bug report.
>> Best regards
>> Christian
>>
>>
>>
>> Christian Goosmann Mikroskopie Max-Planck-Institut für
>> Infektionsbiologie Campus Charité Mitte Charitéplatz 1 10117
>> Berlin Tel.: +49 30 28460 388 <tel:%2B49%2030%2028460%20388>
>>
>> Curtis Rueden wrote:
>>
>> Hi Christian,
>>
>> > instead of shifting the object, any movement of the mouse
>> makes the
>> > object disappear rapidly to the right, out of the viewer window.
>>
>> Until recently, there was a bug in the bug tracker about this:
>>
>>
http://fiji.sc/bugzilla/show_bug.cgi?id=432>>
>> I just closed it as "works for me", since I couldn't reproduce it.
>>
>> And I still cannot reproduce with an up-to-date Fiji using the
>> Bat Cochlea Volume sample.
>>
>> Maybe it is something about your Java3D installation...
>>
>> Could you have a look at:
>>
http://wiki.imagej.net/Debugging_intro#Debugging_Java3D_issues>> ?
>>
>> Thanks,
>> Curtis
>>
>>
>> On Thu, Jun 19, 2014 at 6:09 AM, Christian Goosmann
>> <
[hidden email]
>> <mailto:
[hidden email]>
>> <mailto:
[hidden email]
>>
>> <mailto:
[hidden email]>>> wrote:
>>
>> Found a workaround. Using the arrow keys while holding
>> shift will
>> shift the view, it is just not possible using the mouse.
>>
>>
>> ---
>> Christian Goosmann
>> Mikroskopie
>> Max-Planck-Institut für Infektionsbiologie
>> Campus Charité Mitte
>> Charitéplatz 1
>> 10117 Berlin
>> Tel.: +49 30 28460 388 <tel:%2B49%2030%2028460%20388>
>> <tel:%2B49%2030%2028460%20388>
>>
>>
>> Christian Goosmann wrote:
>>
>> Dear list
>> when I use 3D Viewer to view volumes out of an image
>> stack I
>> am not able to shift the view. According to the
>> documentation,
>> you drag with the left mouse button while the hand tool is
>> active. But instead of shifting the object, any
>> movement of
>> the mouse makes the object disappear rapidly to the
>> right, out
>> of the viewer window. You can get it back by 'view>center
>> selected' but it is not shifted. I get the same
>> result, using
>> the bat cochlea sample stack in updated FIJI win 32,
>> lifeline
>> version of 2013 of Fiji win 32 and on lifeline version
>> of 2014
>> on Fiji win 64 on a more powerful machine. Am I
>> missing any
>> important settings or options that I have to change so
>> that 3D
>> viewer would act as documented? Any useful hints?
>> Thank you so much
>> Christian
>>
>>
>> --
>> ImageJ mailing list:
http://imagej.nih.gov/ij/list.html>>
>>
>>
>>
>>
>