If you click Help/About, the 100% CPU usage goes away. This is just a
temporary workaround, a real solution is highly desirable.

Shige

On Wed, Aug 5, 2009 at 10:12 AM, Liviu Andronic <landronimirc@gmail.com>wrote:

> Dear all,
> To follow up on my troubles, I encounter the same issues on Ubuntu.
> I've installed a fresh copy of Jaunty Jackalope, R 2.8.1, Sun's Java
> 6, and built JGR from source. On the first run, I get this message:
> liviu@ubuntu-liv:~$ JGR
> 05-Aug-2009 14:51:36 java.util.prefs.FileSystemPreferences$2 run
> INFO: Created user preferences directory.
>
> Subsequently, after each start JGR starts using 100% of CPU (which
> causes heat and makes the programme unusable) and I also get the same
> warning as on Ubuntu.
> liviu@ubuntu-liv:~$ JGR
> WARNING: org.rosuda.JRI.Mutex was unlocked by other thread than
> locked! This may soon lead to a crash...
>
> I'm currently migrating from Gentoo to Debian, and on Gentoo I had no
> such issues.
>
> If anyone has any ideas on what might be wrong or how to approach
> these issues, please let me know.
> Liviu
>
>
>
> ## On Ubuntu
> > sessionInfo()
> R version 2.8.1 (2008-12-22)
> x86_64-pc-linux-gnu
>
> locale:
>
> LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_GB.UTF-8;LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] JGR_1.6-7    iplots_1.1-3 JavaGD_0.5-2 rJava_0.6-3
>
>
>
>
>
> On Tue, Aug 4, 2009 at 12:35 PM, Liviu Andronic<landronimirc@gmail.com>
> wrote:
> > Dear all,
> > I installed the amd64 cran2deb [1] JGR binaries on a fresh Debian
> > testing, and JGR is missbehaving. When JGR starts up, one core of the
> > CPU goes to 100% and stays there, even though I am keeping it idle and
> > not performing any operation.
> >
> > I tried JGR with both sun-java6-jdk and openjdk-6-jdk,
> > debian-liv:/home/liviu# update-alternatives --config java
> > There are 4 choices for the alternative java (providing /usr/bin/java).
> >
> >  Selection    Path                                      Priority   Status
> > ------------------------------------------------------------
> >  0            /usr/lib/jvm/java-6-openjdk/jre/bin/java   1061      auto
> mode
> >  1            /usr/bin/gij-4.3                           43        manual
> mode
> >  2            /usr/lib/jvm/java-6-openjdk/jre/bin/java   1061      manual
> mode
> > * 3            /usr/lib/jvm/java-6-sun/jre/bin/java       63
>  manual mode
> >  4            /usr/lib/jvm/java-gcj/jre/bin/java         1043      manual
> mode
> >
> > options 3 and 0, to no avail. After changing the java alternative, I
> > also executed
> > debian-liv:/home/liviu# R CMD javareconf
> > Java interpreter : /usr/bin/java
> > Java version     : 1.6.0_14
> > Java home path   : /usr/lib/jvm/java-1.5.0-gcj-4.3-1.5.0.0/jre
> > Java compiler    : /usr/bin/javac
> > Java headers gen.: /usr/bin/javah
> > Java archive tool: /usr/bin/jar
> > Java library path: /usr/lib/../lib/gcj-4.3-90:/usr/lib/jni
> > JNI linker flags : -L/usr/lib/../lib/gcj-4.3-90 -L/usr/lib/jni -ljvm
> > JNI cpp flags    :
> >
> > Updating Java configuration in /etc/R
> > Done.
> >
> > Starting JGR via require(JGR) or the stand-alone script
> > (/usr/local/lib/R/site-library/JGR/scripts/run) makes no difference.
> > Neither running as user or as root. JGR will start and immediately
> > begin using 100% of one CPU core.
> >
> > One thing that it complains of is:
> > liviu@debian-liv:~$ /usr/local/lib/R/site-library/JGR/scripts/run
> > WARNING: org.rosuda.JRI.Mutex was unlocked by other thread than
> > locked! This may soon lead to a crash...
> >
> > Could anyone suggest a way to work around this issue? Thank you,
> > Liviu
> >
> > [1]
> http://www.mail-archive.com/debian-science@lists.debian.org/msg03306.html
> >
> >
> >
> >
> >
> > --
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> >
>
>
>
> --
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