some windows do not appear in the window list

Thank you for your bug. What application is "editor"? Do you get the issue if you don't run compiz?

"editor" is the matlab (r2007b) file editor. It is a java GUI.

I tried with metacity, I still have a strange behaviour with that particular window. I can't remember experiencing the problem with another window, therefore this may be a matlab problem.

Is there anyway to be sure ?

can you run wnckprop, click on the not listed dialog and attach the informations to a comment?

I upgraded to Hardy Heron and Matlab 2008a and still have the same problem (I use Desktop Effects, I have tried without them)

here is the requested information:

$ LANG=C wnckprop
Name: Editor - /home/seb/Devel/arboris/trunk/arboris/graphic/arb_widgetboundedvalueslider.m
Icon Name: Editor - /home/seb/Devel/arboris/trunk/arboris/graphic/arb_widgetboundedvalueslider.m
Icons: set
On Workspace: 0 ("Espace de travail 1")
On Screen: 0 (Window Manager: compiz)
Window Type: normal window
Geometry (x, y, width, height): 36, 25, 812, 875
Class Group: com-mathworks-util-PostVMInit
XID: 56623574
PID: <unset>
Session ID: <unset>
State: normal
Possible Actions: move, resize, shade, unshade, stick, unstick, maximize horizontally, unmaximize horizontally, maximize vertically, unmaximize vertically, change workspace, pin, unpin, minimize, unminimize, maximize, unmaximize, change fullscreen mode, close, make above, unmake above, make below, unmake below

I constantly have the same problem (hardy with compiz enabled) with java applications such as intellij IDEA.

Name: s3ptms-proxy - [/home/jvb/javaprj/legacy-jntc/trunk/proxies/s3ptms] - [s3ptms-proxy] - .../pom.xml - IntelliJ IDEA (Diana) #8418
Icon Name: s3ptms-proxy - [/home/jvb/javaprj/legacy-jntc/trunk/proxies/s3ptms] - [s3ptms-proxy] - .../pom.xml - IntelliJ IDEA (Diana) #8418
Icons: set
On Workspace: 0 ("Desk 1")
On Screen: 0 (Window Manager: compiz)
Window Type: normal window
Geometry (x, y, width, height): 31, 0, 1649, 1025
Class Group: java-lang-Thread
XID: 69207831
PID: <unset>
Session ID: <unset>
State: maximized
Possible Actions: move, resize, shade, unshade, stick, unstick, maximize horizontally, unmaximize horizontally, maximize vertically, unmaximize vertically, change workspace, pin, unpin, minimize, unminimize, maximize, unmaximize, change fullscreen mode, close, make above, unmake above, make below, unmake below

Solution here:

http://ubuntuforums.org/showpost.php?p=3064253&postcount=395

Thanks for sent it upstream Jacob.

The workaround from comment 8 makes matlab crash on startup.
So this is essentially unsolved without any workaround.

1 jakob@black:/tmp$ export AWT_TOOLKIT=MToolkit
0 jakob@black:/tmp$ matlab
Unable to initialize com.mathworks.mwswing.MJStartup
Fatal Error on startup: Failure loading desktop class
1 jakob@black:/tmp$

when compiz is off I don't have this issue, but with compiz i do.
should this bug also be attached to compiz?

this affects me as well and is very annoying, especially if you have multiple screens.

I have this issue irrespective of whether compiz is turned on or off, on a single workspace, single screen with Matlab windows.

Running Ubuntu 10.04 x86_64

$ cat /etc/issue
Ubuntu 9.10
$ uname -a
Linux qssacer 2.6.31-20-generic-pae #57-Ubuntu SMP Mon Feb 8 10:23:59 UTC 2010 i686 GNU/Linux
$ java -version
java version "1.6.0_15"
Java(TM) SE Runtime Environment (build 1.6.0_15-b03)
Java HotSpot(TM) Client VM (build 14.1-b02, mixed mode, sharing)

Running Adempiere
This program open several windows - every window opened appears in the gnome-panel.
When opening a modal dialog box - all the windows disappear but one (wich is right as the other windows are not navigable), and when closing the dialog, this window also disappear from the gnome-panel, or it disappear when closed.
Navigating with alt-tab and minimizing restore the gnome-panel as suggested above.

Confirming that disabling compiz everything works fine.

Regards,

Carlos Ruiz
http://www.adempiere.com/index.php/User:CarlosRuiz

Ubuntu 9.10 (Karmic) 32-bit with all the current updates
3D-accelerated proprietary graphics driver for ATI cards is on.

$ uname -a
Linux piotr-desktop 2.6.31-20-generic-pae #58-Ubuntu SMP Fri Mar 12 06:25:51 UTC 2010 i686 GNU/Linux

$ java -version
java version "1.6.0_0"
OpenJDK Runtime Environment (IcedTea6 1.6.1) (6b16-1.6.1-3ubuntu1)
OpenJDK Server VM (build 14.0-b16, mixed mode)

Problem shows up when running Matlab R2009b 32-bit . When Compiz is running and more than one Matlab window is opened sometimes one or two Matlab windows disappear from GNOME panel. They are available through Alt+Tab or Turbo+Tab. When Compiz is disabled it works OK.

BTW, Scilab 5.2.1 seems to work fine, though it's build around Java graphics as well.

  Cheers,
 Piotr

> BTW, Scilab 5.2.1 seems to work fine, though it's build around Java graphics as well.

 I take it back! On a different machine I had similar issues when running Scilab 5.2.1 (64-bit Linux version) demos presenting Xcos and Modelica (Scilab's counterpart of Simulink in Matlab).

I opened main window (Console), then clicked ? > Scilab Demonstration. A new window popped out and then went Xcos > Modelica demos > Ball on platform (but can be any other demo from that category). It opened Xcos window with a Simulink style diagram. Then, in Xcos window, I've clicked Simulation > Start. Scilab compiled the model and when the information about successful compilation was prompted Xcos window with models diagram disappeared from the GNOME panel. Also window with demos menu disappeared. They were available through Alt+Tab or Turbo+Tab. Minimizing windows returned them to the panel.

Scilab 5 is available on licence considered free, so, contrary to Matlab, source code should be available.
http://www.scilab.org/

Ubuntu 9.10 (Karmic) 64-bit with all the current updates
NVIDIA graphic card with property drivers enabled
Compiz enabled
$ uname -a
Linux ubuntu-user 2.6.31-20-generic #58-Ubuntu SMP Fri Mar 12 04:38:19 UTC 2010 x86_64 GNU/Linux
$ java -version
java version "1.6.0_0"
OpenJDK Runtime Environment (IcedTea6 1.6.1) (6b16-1.6.1-3ubuntu1)
OpenJDK 64-Bit Server VM (build 14.0-b16, mixed mode)

Hope it will be helpful.
 Piotr

Still occurs in lucid beta2

Always reproducible in IntelliJ IDEA 9 (both in FOSS Community Edition and Ultimate edition):

1) Open any project
2) Open a second project in new window
3) Menu File -> New window & cancel the dialog that comes

-> the window from which you opened the dialog is gone, and only comes back when minimized

apologies that should have been File -> New project.

Also, it does not occur when the other project windows are minimized when the New project dialog is launched.

java version "1.6.0_19"
Java(TM) SE Runtime Environment (build 1.6.0_19-b04)
Java HotSpot(TM) 64-Bit Server VM (build 16.2-b04, mixed mode)

compiz enabled

2.6.32-19-generic #28-Ubuntu SMP Thu Apr 1 10:39:41 UTC 2010 x86_64 GNU/Linux

(II) Module intel: vendor="X.Org Foundation"
        compiled for 1.7.6, module version = 2.9.1
        Module class: X.Org Video Driver
        ABI class: X.Org Video Driver, version 6.0

I came across this bug in Matlab R2008a and R2009b under Ubuntu 9.04 and 9.10. The application may disappear from gnome panel if you minimize the window. If you use Alt-Tab and show desktop Ctrl-Alt-d the problem does not show up.

Switching from Compiz to Metacity
$ metacity --replace
fixes the problem for me. Compiz provides nice desktop effects, so I think going back to Metacity is not a solution: the solution is to fix Compiz.

$ uname -a
Linux zver 2.6.31-20-generic #58-Ubuntu SMP Fri Mar 12 05:23:09 UTC 2010 i686 GNU/Linux
$ java -version
java version "1.6.0_0"
OpenJDK Runtime Environment (IcedTea6 1.6.1) (6b16-1.6.1-3ubuntu1)
OpenJDK Server VM (build 14.0-b16, mixed mode)

This bug also occurs in Ubuntu 10.04 LTS.

Running IntelliJ IDEA and setting AWT_TOOLKIT="MToolKit" makes no difference for me when using java-6-openjdk and fails to start when using java-6-sun.

uname -a
Linux ragux 2.6.32-22-generic #33-Ubuntu SMP Wed Apr 28 13:28:05 UTC 2010 x86_64 GNU/Linux

Running on Ubuntu 10.04 LTS (Lucid Lynx).

I opened a bug on Compiz bug tracker:
http://bugs.opencompositing.org/show_bug.cgi?id=1316

I can confirm that this bug affects Scilab 5.3 betas. All but one scilab application window disappear from the gnome panel window list whenever a modal dialog box is invoked. A bug was already posted on scilab bugzilla: http://bugzilla.scilab.org/show_bug.cgi?id=8308.

There seems to be a fix (or at least workaround) in compiz. See the patch commit:

http://cgit.compiz.org/compiz/plugins/workarounds/commit/?h=compiz-0.8&id=79f11ed2cd71d2155a5e04aa8803c56633b212bb

Didier, could you make sure that lands in natty?

I can confirm that the patch to compiz mentioned above resolves the issue. For the impatient, it is possible to apply the patch, and it can be done without rebuilding compiz entirely from source. Only the workarounds module (located in libworkarounds.so) must be rebuilt. I have tested the following with Ubuntu 10.04 32-bit and compiz-0.8.6. I assume compiz 0.8.4 is installed initially:

1. Upgrade to compiz 0.8.6

sudo add-apt-repository ppa:compiz/ppa && sudo apt-get update
sudo apt-get upgrade

2. Install compiz option code generator (bcop) and compiz development files (headers)

sudo apt-get install compiz-dev compiz-fusion-bcop

3. Download the main plugins here: http://releases.compiz-fusion.org/components/plugins-main/compiz-plugins-main-0.8.6.tar.gz and extract

tar xfvz compiz-plugins-main-0.8.6.tar.gz

4. Patch src/workarounds/workarounds.c and metadata/workarounds.xml.in with the attached patches :

tar xvfz compiz-plugins-main-0.8.6.tar.gz
patch src/workarounds/workarounds.c src/workarounds/workarounds.c.patch
patch metadata/workarounds.xml.in metadata/workarounds.xml.in.patch

or get the patches directly from:

http://cgit.compiz.org/compiz/plugins/workarounds/commit/?h=compiz-0.8&id=345c430f991d95475478df5d3db7435eb08b8d1e
http://cgit.compiz.org/compiz/plugins/workarounds/commit/?h=compiz-0.8&id=79f11ed2cd71d2155a5e04aa8803c56633b212bb

5. Configure, build and install

In compiz-plugins-main-0.8.6:

./configure --prefix=/usr
cd src/workarounds
make && [sudo] make install

6. Restart compiz or reboot. Enable JavaTaskBarFix in the workarounds module.

It's fixed in natty with compiz 0.9.2.1. If it's not for you, please reopen the bug.

The patch does not work for me.
I followed the instructions of Paul, except the upgrade to compiz 0.8.6, since Ubuntu 10.10 already contains that version.
I enabled the Java fix in the CompizConfig window.
If I open two images with ImageJ, after the opening the second one, the main window disappears from the taskbar.
After minimizing all windows, it reappears.

The patch does not work for me either.
I am using Ubuntu 10.10 with compiz 0.8.6, after recompiling compiz does not seem to work correctly, window contours do not appear. They do reappear when switching back to metacity...

One note of caution: the new option in workarounds is called "Java Taskbar Fix". There is a similarly named option "Java Window Fix" but that is different. Be sure that the new option is available and selected.

I have checked imagej and when I enable "Java Taskbar Fix", all windows remain on the taskbar. All but one go away when a modal dialog is opened, and when the dialog box is closed, they appear as expected. I have installed version 1.43I.

I am not familiar with windows contours that AntoineM mentions, but one solution may be to not build all of compiz. I was not successful in building compiz from source---although I didn't try too hard. Re-building just the workarounds shared library is much easier and less likely to break other parts of compiz.

Thanks Paul, you were right.
The workaround was not completely installed, and I enabled the Java window fix.
To install the fix, you have to execute a "make install" command *also* in the metadata directory of the source. (That is missing from the instructions, but it should have been obvious, sorry.)

To AntoineM:
After the first failure I tried to install the compiz from the suggested PPA source. It depended on kdebase for some reason, what I did not want to install. At the end I had some packages installed from PPA (libdecoration0 probably), and some from the regular site. Compiz did not start, that was why the windows did not have borders.

http://ubuntu-utah.ubuntuforums.org/showthread.php?t=1593523

Remove the PPA site from /etc/apt/sources.list.d
# apt-get clean
# apt-get update
# apt-get remove --purge compiz compiz-fusion-bcop compiz-fusion-plugins-main compiz-gnome compiz-plugins compizconfig-backend-gconf compizconfig-settings-manager libcompizconfig0 python-compizconfig libdecoration0
# apt-get install compiz compizconfig-settings-manager

You do not need the PPA packages for this patch, the normal packages are perfect.

Finally this issue is fixed :)

I combined Paul and Miklos's findings into a script (attached), which should (YMMV) install the fix automatically on ubuntu 10.10.

Usage:

sudo sh fix_java_compiz.sh

the issue should be fixed in the natty compiz version

Confirm that Niall's script is working correctly, error hasn't occured since! Thank you!

The script gave errors about intltool..

if you have a clean installed Ubuntu 10.10,
you need also the intltool and build-essential packages.

On Tue, Nov 30, 2010 at 3:54 PM, Christoph Buchner <
<email address hidden>> wrote:

> Confirm that Niall's script is working correctly, error hasn't occured
> since! Thank you!
>
> --
> some windows do not appear in the window list
> https://bugs.launchpad.net/bugs/144406
> You received this bug notification because you are a direct subscriber
> of a duplicate bug (461822).
>

The above solution by Miklos & Niall has worked for me on Ubuntu 10.10. Your help is greatly appreciated!

It would be great if you could backport the compiz workaround to 10.04LTS.

Niall's script worked great for me too.

However, it stopped in the middle complaining that it did not find the command `intltool-update`, so I had to do a `sudo apt-get install intltool` and re-run the script. Then it ran without any hiccups and fixed the issue for me.

Thanks Niall.

I still have this issue in Xubuntu 12.04 LTS with Matlab R2009a in the xfce4-panel. The main matlab window and the editor window. I have to use Alt+TAB shortcut to access de window because it dissapears from XFCE Panel. Any ideas?

Best Regards,

In Xubuntu 13.10, Xubuntu 12.10, Xubuntu 12.04.3 LTS with different versions of Matlab (Matlab_R2008b_7.7_20_Linux, Matlab_R2010a_7.10_23_Linux, Matlab_R2011b_7.13_26_Linux, and Matlab_R2013a_8.1_29_Linux) this annoying thing of windows disappearing still happens...

Santiago and Roberto,

I have started a bug report for this issue relating to the xfce-panel here:

https://bugs.launchpad.net/ubuntu/+source/xfce4-panel/+bug/1192688

I also have been having similar problems in Xubuntu 12.04, 12.10, 13.04, 13.10. Pressing ALT+TAB does bring Matlab and other java windows back onto the panel but this is very annoying especially when you are using several different windows.

I have this problem in Ubuntu 12.04.5 with Scilab 5.x.