[Rd] Very slow plot rendering with X11 on CentOS 5.5
On Tue, 28 Sep 2010, R P Herrold wrote:
I am connecting from a PC to a Linux system running CentOS
release 5.5 (Final) and it is extremely slow to render plots
to the X11 device.
f - function(n){
for(i in 1:n) qqnorm(rnorm(100))
}
system.time(f(20))
I'll get a packaging built under CentOS 5 on that other architecture
overnight, and supplement this post
done -- same sources and build environment, but a i686 rather
than a a x86_64 architecture. Similar hardware at the remove
unit in the local subnet
It is noticeably sluggish in the rendering compared to local X
client to X server
f - function(n){
+for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.953 0.185 36.992
-- Russ herrold
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Re: [Rd] Very slow plot rendering with X11 on CentOS 5.5
Many, many thanks for the effort Russ. I'm not clear on next steps
but think I need to look at CentOS vs. others in terms of X.
-Original Message-
From: R P Herrold [mailto:herr...@owlriver.com]
Sent: Wednesday, September 29, 2010 8:40 AM
On Tue, 28 Sep 2010, R P Herrold wrote:
I am connecting from a PC to a Linux system running CentOS release
5.5 (Final) and it is extremely slow to render plots to the X11
device.
f - function(n){
for(i in 1:n) qqnorm(rnorm(100))
}
system.time(f(20))
I'll get a packaging built under CentOS 5 on that other architecture
overnight, and supplement this post
done -- same sources and build environment, but a i686 rather than a a
x86_64 architecture. Similar hardware at the remove unit in the local
subnet
It is noticeably sluggish in the rendering compared to local X client to
X server
f - function(n){
+for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.953 0.185 36.992
-- Russ herrold
__
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
Re: [Rd] Very slow plot rendering with X11 on CentOS 5.5
On Wed, 29 Sep 2010, Weigand, Stephen D. wrote: Many, many thanks for the effort Russ. I'm not clear on next steps but think I need to look at CentOS vs. others in terms of X. I suspect all X will be similar within an order of magnitude, but dunno -- I did not 'tune' the workstation I tested on to be a racehorse, and there are ways to do that. Your local admins will (should) know how I guess with such dramatic speed difference, if R is part of your daily analytic toolset, I'd use those time trialling as the evidence to be lobbying for a local workstation to work in. out of scope, here of course -- Russ herrold __ R-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-devel
[Rd] Very slow plot rendering with X11 on CentOS 5.5
I am connecting from a PC to a Linux system running CentOS
release 5.5 (Final) and it is extremely slow to render plots
to the X11 device.
This is not R's fault but I wonder if anyone can offer
guidance so I can help the system administrators address
the problem.
I can connect to the Linux server using a NoMachine NX client
for Windows or using X-Win32. I also have access to R running
on my Windows PC and an older version of R on Solaris which
I connect to using X-Win32.
Using a test function of:
f - function(n){
for(i in 1:n) qqnorm(rnorm(100))
}
system.time(f(20))
I get typical timings of:
Platform Version Client'type' user system elapsed
Linux2.11.0 NX client cairo 1.012 0.131 7.155
Linux2.11.0 NX client Xlib 0.964 0.127 7.119
Linux2.11.0 X-Win32cairo 1.141 0.211 20.287
Linux2.11.0 X-Win32Xlib 1.116 0.207 20.152
Solaris 2.8.1 X-Win32cairo 0.172 0.020 0.356
Solaris 2.8.1 X-Win32Xlib 0.173 0.019 0.364
Win322.11.1 Native0.030.220.25
The Linux timings are just awful, particularly using
X-Win32. Cairo vs. Xlib doesn't seem to matter much.
Does anybody have any suggestions on what to look into?
I can work around the Linux problems by not using the X11
device and instead writing a plot to a temporary PNG or
PDF and using Eye of GNOME or Evince but that isn't ideal.
But I would welcome any tips in this regard.
The Linux sessionInfo is:
R version 2.11.0 (2010-04-22)
x86_64-unknown-linux-gnu
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=C LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
Thank you,
Stephen
--
Stephen Weigand, Statistician II
Biomedical Statistics and Informatics
(507) 266-1650; fax (507) 284-9542
Mayo Clinic; 200 First St. SW
Rochester, Minn., 55905 USA
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[Rd] Very slow plot rendering with X11 on CentOS 5.5
On Tue, 28 Sep 2010, Weigand, Stephen D. wrote:
I am connecting from a PC to a Linux system running CentOS
release 5.5 (Final) and it is extremely slow to render plots
to the X11 device.
The Linux timings are just awful, particularly using
X-Win32. Cairo vs. Xlib doesn't seem to matter much.
I have to think it is display rendering load at the displaying
unit [an X server], or network latencies in getting the detail
from the producer [an X client] to the displaying unit [an X
server]
With centos 5 on a local X display [so the X client, and
the X server do not have to push the content through the X
fowarding and across the network sockets, but rather can go
through the lo interface under Linux]:
f - function(n){
+ for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.220 0.028 2.417
which is quite sprightly ;)
---
Then when I run it on the same hardware, but through two SSH
hops, to, and back from a remote unit in the local subnet,
things fall apart:
[herr...@centos-5 ~]$ ssh xps400
Last login: Tue Sep 28 11:00:05 2010 from centos-5.first.lan
[herr...@xps400 ~]$ ssh centos-5
herr...@centos-5's password:
Last login: Tue Sep 28 09:13:50 2010
[herr...@centos-5 ~]$ R
...
f - function(n){
+ for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.352 0.272 29.681
---
I build my own R packaging under CentOS and do not have a
packaging suitable for the architecture of that intermediate
box -- installing R to a Debian testing box, and running the X
forwarding connection only one hop, it is again visually
rebdered MUCH slower. I get:
system.time(f(20))
user system elapsed
0.644 0.212 45.089
yikes ;)
I'll get a packaging built under CentOS 5 on that other
architecture overnight, and supplement this post
-- Russ herrold
__
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Re: [Rd] Very slow plot rendering with X11 on CentOS 5.5
For whatever it is worth, a long time ago I had this problem when ssh
-X connecting to a server and doing simple plots such as plot(1:10).
It was painfully slow and I could see how each data points was
plotted. After using X11.options(type=Xlib) in R things was back to
normal (fast) again. I think the default before was
X11.options(type=cairo).
My $0.02
/Henrik
On Tue, Sep 28, 2010 at 3:19 PM, R P Herrold herr...@owlriver.com wrote:
On Tue, 28 Sep 2010, Weigand, Stephen D. wrote:
I am connecting from a PC to a Linux system running CentOS
release 5.5 (Final) and it is extremely slow to render plots
to the X11 device.
The Linux timings are just awful, particularly using
X-Win32. Cairo vs. Xlib doesn't seem to matter much.
I have to think it is display rendering load at the displaying unit [an X
server], or network latencies in getting the detail from the producer [an X
client] to the displaying unit [an X server]
With centos 5 on a local X display [so the X client, and the X server do not
have to push the content through the X fowarding and across the network
sockets, but rather can go through the lo interface under Linux]:
f - function(n){
+ for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.220 0.028 2.417
which is quite sprightly ;)
---
Then when I run it on the same hardware, but through two SSH hops, to, and
back from a remote unit in the local subnet, things fall apart:
[herr...@centos-5 ~]$ ssh xps400
Last login: Tue Sep 28 11:00:05 2010 from centos-5.first.lan
[herr...@xps400 ~]$ ssh centos-5
herr...@centos-5's password:
Last login: Tue Sep 28 09:13:50 2010
[herr...@centos-5 ~]$ R
...
f - function(n){
+ for(i in 1:n) qqnorm(rnorm(100))
+ }
system.time(f(20))
user system elapsed
0.352 0.272 29.681
---
I build my own R packaging under CentOS and do not have a packaging suitable
for the architecture of that intermediate box -- installing R to a Debian
testing box, and running the X forwarding connection only one hop, it is
again visually rebdered MUCH slower. I get:
system.time(f(20))
user system elapsed
0.644 0.212 45.089
yikes ;)
I'll get a packaging built under CentOS 5 on that other architecture
overnight, and supplement this post
-- Russ herrold
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