Thanks, there has been no activity on the BZ report yet. Hopefully, this can be fixed
soon, and I understand it is possible that it may be a memory leak in one of the R
components. For instance, this morning, I noticed that even running the histogram command
twice crashes the JGR window. I wonder if the issue also happens with Fedora 31.
Ranjan
On Thu, 10 Sep 2020 07:19:27 -0300 "George N. White III"
<gnwiii(a)gmail.com> wrote:
On Wed, 9 Sep 2020 at 16:33, Jerry James <loganjerry(a)gmail.com>
wrote:
> On Wed, Sep 9, 2020 at 1:12 PM Ranjan Maitra <maitra(a)email.com> wrote:
> > Thanks, so this appears to be a Fedora problem. Btw, I tried oracle's
> jdk-14.0.2_linux-x64_bin.rpm and had the same result.
> >
> > I filed a bug report:
>
https://bugzilla.redhat.com/show_bug.cgi?id=1877524
>
> Why does everyone seem to think this is a Java bug?
My system generated crash report (including a core dump) that identified a
segfault
in the Java runtime. A Java process is started by JGR(). JavaGD() seems
to start
another Java process
The OP's log starts with segfaults (signal 11) in a Java process:
Sep 9 08:51:12 localhost audit[53948]: ANOM_ABEND auid=1000 uid=1000
gid=1000 ses=2 subj=unconfined_u:unconfined_r:unconfined_t:s0-s0:c0.c1023
pid=53948 comm="Thread-5"
exe="/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.265.b01-1.fc32.x86_64/jre/bin/java"
sig=11 res=1
Sep 9 08:51:12 localhost kernel: audit: type=1701
audit(1599659472.313:4973): auid=1000 uid=1000 gid=1000 ses=2
subj=unconfined_u:unconfined_r:unconfined_t:s0-s0:c0.c1023 pid=53948
comm="Thread-5"
exe="/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.265.b01-1.fc32.x86_64/jre/bin/java"
sig=11 res=1
The system log
> showed that a crash occurred in Rf_eval (libR.so + 0x157ab3); i.e., in
> the R library. The stack trace shows a lot of calls to these
> functions:
>
> bcEval
> forcePromise
> getvar
> R_execClosure
> Rf_appyClosure
> Rf_eval
>
> It's possible that R is being handed an expression to evaluate that is
> so complex that it runs out of stack space, or there could be an
> infinite recursion bug in R somewhere. If the former, the solution is
> to bump up the stack space. I would try the -Xss argument to java
> first to see if that makes the issue go away. I'm not sure what the
> default value is, so I don't know what to suggest, but maybe start
> with something like -Xss4M. If that fixes the issue, then retry with
> successively smaller values to find something reasonable that is still
> big enough to work.
>
The problem seems to be specific to Fedora 32.
> --
> Jerry James
>
http://www.jamezone.org/
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--
George N. White III
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