Ubuntu 16.04 graphics glitches in profiler

With Intel Sky Lake Integrated Graphics (i915_bpo) and Ubuntu 16.04 i get "weird" graphics glitches when using the profiler. An example is

profile on;
test=rand(100,1);
profile viewer;

Nevertheless the problem seems to disappear when switching to the default java version shipped with ubuntu:

MATLAB_JAVA=/usr/lib/jvm/default-java/jre   matlab

or the openjdk

MATLAB_JAVA=/usr/lib/jvm/java-8-openjdk-amd64/jre/   matlab

I prefer Oracle java, so the following works also

MATLAB_JAVA=/usr/lib/jvm/java-8-oracle/jre  matlab

But now matlab complains

The desktop configuration was not saved successfully

First I want to share this information and ask how I could debug the problem stemming from the JAVA version shipped with matlab. Also switching to software opengl didn't change anything. The problem definitely stems from java.

[Jakob Ameres]

When switching to java-1.7 the desktop configuration file can be read again, but the glitches are back again. For java-1.8 graphics work, but MATLAB does not support this version entirely. So it is a java-1.7 problem, and not MATLABs fault, although it would be nice to have java-1.8 support.

Answer 1

[Dave Behera]

The error you mentioned usually comes when MATLAB does not have permissions to write to a particular folder. Try running your command as root user. It should help.

[Jakob Ameres]

It seems rather to be a problem with a configuration file, rather than access rights. This is the error matlab gives me:

java.io.IOException: XPathFactory#newInstance() failed to create an XPathFactory for the default object model: http://java.sun.com/jaxp/xpath/dom with the XPathFactoryConfigurationException: javax.xml.xpath.XPathFactoryConfigurationException: java.util.ServiceConfigurationError: javax.xml.xpath.XPathFactory: jar:file:/opt/matlab_R2016a/java/jarext/saxon9-xpath.jar!/META-INF/services/javax.xml.xpath.XPathFactory:2: Illegal configuration-file syntax at com.mathworks.widgets.desk.Desktop.saveLayout(Desktop.java:5018) at com.mathworks.widgets.desk.Desktop$41.call(Desktop.java:4043) at com.mathworks.widgets.desk.Desktop$41.call(Desktop.java:4031) at com.mathworks.widgets.desk.Desktop.deferredCall(Desktop.java:7941) at com.mathworks.widgets.desk.Desktop.saveLayout(Desktop.java:4031) at com.mathworks.widgets.desk.Desktop.close(Desktop.java:4630) at com.mathworks.widgets.desk.Desktop$DeferredCloser.run(Desktop.java:4712) at com.mathworks.mwswing.SynchronousInvokeUtility$SynchronousEventAdapter.executeOnSwingThread(SynchronousInvokeUtility.java:93) at com.mathworks.mwswing.SynchronousInvokeUtility$SynchronousEvent.run(SynchronousInvokeUtility.java:111) at com.mathworks.jmi.AWTUtilities$Invoker$5$1.run(AWTUtilities.java:591) at com.mathworks.mvm.context.ThreadContext$1.call(ThreadContext.java:76) at com.mathworks.mvm.context.ThreadContext.callWithContext(ThreadContext.java:105) at com.mathworks.mvm.context.ThreadContext.runWithContext(ThreadContext.java:73) at com.mathworks.mvm.context.MvmContext.runWithContext(MvmContext.java:107) at com.mathworks.jmi.AWTUtilities$Invoker$5.runWithOutput(AWTUtilities.java:588) at com.mathworks.jmi.AWTUtilities$Invoker$2.watchedRun(AWTUtilities.java:475) at com.mathworks.jmi.AWTUtilities$WatchedRunnable.run(AWTUtilities.java:436) at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:311) at java.awt.EventQueue.dispatchEventImpl(EventQueue.java:756) at java.awt.EventQueue.access$500(EventQueue.java:97) at java.awt.EventQueue$3.run(EventQueue.java:709) at java.awt.EventQueue$3.run(EventQueue.java:703) at java.security.AccessController.doPrivileged(Native Method) at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(ProtectionDomain.java:76) at java.awt.EventQueue.dispatchEvent(EventQueue.java:726) at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:201) at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:116) at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:105) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:101) at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:93) at java.awt.EventDispatchThread.run(EventDispatchThread.java:82)