Hello,

This could be due to :
http://wiki.scilab.org/Graphical_issues_with_Scilab_5.0
(ie what if you graphic card and are your drivers up to date ?)

Can you try both example:

// Example using GLJPanel (Mixing uicontrols and graphics is available)
usecanvas(%F);
plot2d();
uicontrol("String", "Close the window", "Position", [10 10 100, 25], 
"Callback", "delete(gcf())");
messagebox("You can see the button on the figure.", "Usecanvas example", 
"info");

// Example using GLCanvas (Mixing uicontrols and graphics is not available, 
uicontrols are not visible)
usecanvas(%T);
plot2d();
uicontrol("String", "Close the window", "Position", [10 10 100, 25], 
"Callback", "delete(gcf())");
messagebox("You can''t see any button on the figure.", "Usecanvas example", 
"info");

-- 
scilab 5 displays incorrect graphics when using bar() and segfaults at exit
https://bugs.launchpad.net/bugs/343091
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