Hi.
Thank you for your help. From your suggestions, I tried the following;
R CMD INSTALL --no-test-load rgl_0.92.798.tar.gz
This seemed to load and install (starting R and issuing library(rgl) did not
flag any problems
But running the sphere example from rgl, it causes big problems :-)
# R
R version 2.13.0 (2011-04-13)
Copyright (C) 2011 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: x86_64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
library(rgl)
open3d()
[1] 1
spheres3d(rnorm(10), rnorm(10), rnorm(10), radius=runif(10),
color=rainbow(10))
X Error of failed request: GLXUnsupportedPrivateRequest
Major opcode of failed request: 143 (GLX)
Minor opcode of failed request: 16 (X_GLXVendorPrivate)
Serial number of failed request: 75
Current serial number in output stream: 80
*** caught segfault ***
address (nil), cause 'memory not mapped'
Traceback:
1: .C(rgl_spheres, success = as.integer(FALSE), idata,
as.numeric(vertex), as.numeric(radius), NAOK = TRUE)
2: rgl.spheres(x = c(0.506515614656334, -0.610549216480097,
1.08552683577513, 0.189935807154803, 1.3670636776769, 1.0181689602839,
-1.51133180077403, 1.41127485066926, 0.199668469858345, -1.22523054947931),
y = c(-0.323499291411831, -1.00507951141751, -0.901821819799205,
1.41189828512003, -0.131573335707317, -0.308459525548042, 1.50221794165404,
-0.154047787639801, 0.44717002689869, -0.93671163236924), z =
c(0.836709660070246, -0.251235618242673, -2.02289120416259,
0.499914144749108, -0.458094619767492, 1.48047512280956, 0.80987242929676,
-1.17963322744287, 0.81492625128413, 0.475181724036684), radius =
c(0.174093995941803, 0.75503840832971, 0.562892300076783, 0.541058518458158,
0.724675815086812, 0.828356854617596, 0.423405217472464, 0.540400178171694,
0.0765824350528419, 0.55016236170195), color = c("#FF0000FF", "#FF9900FF",
"#CCFF00FF", "#33FF00FF", "#00FF66FF", "#00FFFFFF", "#0066FFFF",
"#3300FFFF", "#CC00FFFF", "#FF0099FF"), alpha = 1, lit = TRUE, ambient =
"#000000", specular = "#FFFFFF", emission = "#000000", shininess = 50,
smooth = TRUE, front = "filled", back = "filled", size = 3, lwd = 1, fog
= FALSE, point_antialias = FALSE, line_antialias = FALSE, texture =
NULL, textype = "rgb", texmipmap = FALSE, texminfilter = "linear",
texmagfilter = "linear", texenvmap = FALSE)
3: do.call("rgl.spheres", c(list(x = x, y = y, z = z, radius = radius),
.fixMaterialArgs(..., Params = save)))
4: spheres3d(rnorm(10), rnorm(10), rnorm(10), radius = runif(10), color
= rainbow(10))
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:
Does this error message make anything clearer?
On Mon, May 23, 2011 at 2:43 PM, john herbert<arraystrugg...@gmail.com>wrote:
Dear R users,
I have installed the latest version of R from source on Centos (using
configure and make install).
This seemed to work fine, with no Errors reported and R at the command line
starts R.
However, if I try and installed the package rgl using;
install.packages("rgl")
I get the following error;
installing to /usr/local/lib64/R/library/rgl/libs
** R
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
*** caught segfault ***
address (nil), cause 'memory not mapped'
aborting ...
sh: line 1: 23732 Segmentation fault '/usr/local/lib64/R/bin/R'
--no-save --slave< /tmp/RtmpkvIjOb/file6d97876
ERROR: loading failed
* removing â/usr/local/lib64/R/library/rglâ
The downloaded packages are in
â/tmp/Rtmp5OaGuQ/downloaded_packagesâ
Updating HTML index of packages in '.Library'
Making packages.html ... done
Warning message:
In install.packages("rgl") :
installation of package 'rgl' had non-zero exit status
I read that Open GL header files have to be present and are in
/usr/include/GL.
I also read about different graphics cards causing problems but I don't
know how to find this info out.
Any help appreciated and full error message included below.
Thanks,
sessionInfo()
R version 2.13.0 (2011-04-13)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_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
#################### full error ######################
install.packages("rgl")
--- Please select a CRAN mirror for use in this session ---
Loading Tcl/Tk interface ... done
trying URL 'http://cran.ma.imperial.ac.uk/src/contrib/rgl_0.92.798.tar.gz'
Content type 'application/x-gzip' length 1677772 bytes (1.6 Mb)
opened URL
==================================================
downloaded 1.6 Mb
* installing *source* package ârglâ ...
checking for gcc... gcc -std=gnu99
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc -std=gnu99 accepts -g... yes
checking for gcc -std=gnu99 option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -std=gnu99 -E
checking for gcc... (cached) gcc -std=gnu99
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc -std=gnu99 accepts -g... (cached) yes
checking for gcc -std=gnu99 option to accept ISO C89... (cached) none
needed
checking for libpng-config... yes
configure: using libpng-config
configure: using libpng dynamic linkage
checking for X... libraries , headers
checking GL/gl.h usability... yes
checking GL/gl.h presence... yes
checking for GL/gl.h... yes
checking GL/glu.h usability... yes
checking GL/glu.h presence... yes
checking for GL/glu.h... yes
checking for glEnd in -lGL... yes
checking for gluProject in -lGLU... yes
checking for freetype-config... yes
configure: using Freetype and FTGL
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c BBoxDeco.cpp -o BBoxDeco.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Background.cpp -o
Background.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Color.cpp -o Color.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Disposable.cpp -o
Disposable.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Light.cpp -o Light.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c LineSet.cpp -o LineSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c LineStripSet.cpp -o
LineStripSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Material.cpp -o Material.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c PointSet.cpp -o PointSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c PrimitiveSet.cpp -o
PrimitiveSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c QuadSet.cpp -o QuadSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c RenderContext.cpp -o
RenderContext.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Shape.cpp -o Shape.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c SphereMesh.cpp -o
SphereMesh.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c SphereSet.cpp -o SphereSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c SpriteSet.cpp -o SpriteSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c String.cpp -o String.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Surface.cpp -o Surface.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c TextSet.cpp -o TextSet.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Texture.cpp -o Texture.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c Viewpoint.cpp -o Viewpoint.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c api.cpp -o api.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c assert.cpp -o assert.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c callbacks.cpp -o callbacks.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c device.cpp -o device.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c devicemanager.cpp -o
devicemanager.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c fps.cpp -o fps.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c ftgl.cpp -o ftgl.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c geom.cpp -o geom.o
gcc -std=gnu99 -I/usr/local/lib64/R/include -DHAVE_PNG_H
-I/usr/include/libpng12 -DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2
-Iext -I/usr/local/include -fpic -g -O2 -c gl2ps.c -o gl2ps.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c glErrors.cpp -o glErrors.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c glgui.cpp -o glgui.o
glgui.cpp: In constructor âGLFTFont::GLFTFont(const char*, int, double,
const char*)â:
glgui.cpp:118: warning: converting to âunsigned intâ from âdoubleâ
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c gui.cpp -o gui.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c init.cpp -o init.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c osxgui.cpp -o osxgui.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c osxlib.cpp -o osxlib.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c par3d.cpp -o par3d.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c pixmap.cpp -o pixmap.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c render.cpp -o render.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c rglmath.cpp -o rglmath.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c rglview.cpp -o rglview.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c scene.cpp -o scene.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c select.cpp -o select.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c win32gui.cpp -o win32gui.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c win32lib.cpp -o win32lib.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c x11gui.cpp -o x11gui.o
g++ -I/usr/local/lib64/R/include -DHAVE_PNG_H -I/usr/include/libpng12
-DHAVE_FREETYPE -Iext/ftgl -I/usr/include/freetype2 -Iext
-I/usr/local/include -g -O2 -fpic -g -O2 -c x11lib.cpp -o x11lib.o
g++ -shared -L/usr/local/lib64 -o rgl.so BBoxDeco.o Background.o Color.o
Disposable.o Light.o LineSet.o LineStripSet.o Material.o PointSet.o
PrimitiveSet.o QuadSet.o RenderContext.o Shape.o SphereMesh.o SphereSet.o
SpriteSet.o String.o Surface.o TextSet.o Texture.o Viewpoint.o api.o
assert.o callbacks.o device.o devicemanager.o fps.o ftgl.o geom.o gl2ps.o
glErrors.o glgui.o gui.o init.o osxgui.o osxlib.o par3d.o pixmap.o render.o
rglmath.o rglview.o scene.o select.o win32gui.o win32lib.o x11gui.o x11lib.o
-lGLU -lGL -L/usr/lib64 -lpng12 -lX11 -lfreetype
installing to /usr/local/lib64/R/library/rgl/libs
** R
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
*** caught segfault ***
address (nil), cause 'memory not mapped'
aborting ...
sh: line 1: 23732 Segmentation fault '/usr/local/lib64/R/bin/R'
--no-save --slave< /tmp/RtmpkvIjOb/file6d97876
ERROR: loading failed
* removing â/usr/local/lib64/R/library/rglâ
The downloaded packages are in
â/tmp/Rtmp5OaGuQ/downloaded_packagesâ
Updating HTML index of packages in '.Library'
Making packages.html ... done
Warning message:
In install.packages("rgl") :
installation of package 'rgl' had non-zero exit status
[[alternative HTML version deleted]]
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