System shutdown when use R-mkl

Question

I'm not sure this is the right section to post, but since I consider myself a newbie, I'd start here.
I just built a new system with Intel 4790k as processor. I installed intel-parallel-studio-xe and r-mkl. Installation went smoothly. However, the system would shutdown, then reboot, when certain R scripts are run such as:
runs <- 3 # Number of times the tests are executed
times <- rep(0, 15); dim(times) <- c(5,3)
require(Matrix) # Optimized matrix operations
require(SuppDists) # Optimized random number generators
Runif <- runif
Rnorm <- rnorm
options(object.size=100000000)
cumulate <- 0; b <- 0
for (i in 1:runs) {
a <- crossprod(new("dgeMatrix", x = Rnorm(3000*3000),
Dim = as.integer(c(3000, 3000))))
invisible(gc())
#a <- Rnorm(900*900); dim(a) <- c(900, 900)
#a <- crossprod(a, a)
timing <- system.time({
b <- chol(a)
})[3]
cumulate <- cumulate + timing
timing <- cumulate/runs
times[4, 2] <- timing
cat(c("Cholesky decomposition of a 3000x3000 matrix________ (sec): ", timing, "\n"))
Any idea where the problem is? I've tried compiling r-mkl using gcc and icc. Both resulted in the same problem.
The script runs fine without r-mkl. It also runs without problem on my old laptop, with r-mkl.
The cpu temp at the time it was shutdown was around 40-50 C.
Last edited by encryptolic (2015-03-09 18:05:28)

Answer 1

I used systemd. I have tried to boot into the rescue.target and it can be powered-off normally. Below is my multi-user.target
[root@halo multi-user.target.wants]# ls -l
lrwxrwxrwx 1 root root 37 Nov 1 2012 acpid.service -> /usr/lib/systemd/system/acpid.service
lrwxrwxrwx 1 root root 38 Nov 1 2012 cronie.service -> /usr/lib/systemd/system/cronie.service
lrwxrwxrwx 1 root root 46 Nov 1 2012 NetworkManager.service -> /usr/lib/systemd/system/NetworkManager.service
lrwxrwxrwx 1 root root 36 Nov 1 2012 rc-local.service -> /etc/systemd/system/rc-local.service
lrwxrwxrwx 1 root root 40 Apr 21 08:59 remote-fs.target -> /usr/lib/systemd/system/remote-fs.target
lrwxrwxrwx 1 root root 41 Nov 1 2012 syslog-ng.service -> /usr/lib/systemd/system/syslog-ng.service
lrwxrwxrwx 1 root root 45 Nov 1 2012 vgaswitcheroo.service -> /usr/lib/systemd/system/vgaswitcheroo.service
Then I thought it's the vgaswitcheroo problem. After I delete the vgaswitcheroo.service symlink, the problem remains.
Yes, the vgaswitcheroo.service is from this package. Below is the important information after it's installed. I just followed what it said. The problem remains.
<==== INFORMATION ====>
* systemd-vgaswitcheroo-units is now installed.
* Activate it by issuing the following command as root:
*   # systemctl enable vgaswitcheroo
* In order to function properly, debugfs needs to be in your '/etc/fstab' and
* the module 'radeon' should be blacklisted in '/etc/modprobe.conf'.
* If your PC hangs on shutdown/reboot, try disabling 'vgaswitcheroo_stop.sh' by
* erasing the ExecStop-line in '/usr/lib/systemd/system/vgaswitcheroo.service'
Thanks.
Last edited by caasi (2015-05-08 16:09:25)