David Winsemius
On Mar 3, 2009, at 11:37 AM, Prof Brian Ripley wrote:
> It looks to me as if this is a path issue, as inside the R.app
> libpng-config is not found. On my system it is in /usr/local/bin.
> And I think the X configuration expects to find /usr/X11/bin/xmkmf
> (R's version certainly does).
>
> So I suggests putting /usr/local/bin and /usr/X11/bin in your path.
> (My CRAN build of R.app is showing /usr/local/bin but not /usr/X11/
> bin in its path.)
>
> There are configure arguments and variables you can use to set all
> the pieces, but getting the right paths should be easier.
>
> On Tue, 3 Mar 2009, Rob Goedman wrote:
>
>> David,
>>
>> Apologies if you get this twice, I changed some of my email addresses
>> recently...
>>
>> To install 64-bit rgl, on my system, I install it from within a
>> terminal as shown (abbreviated) below.
>>
>> From inside R.app it always fails. I appended the error I get as
>> well.
>>
>> These listings I think correspond to what you and prof Ripley show in
>> the emails. I also use XQuartz 2.3..
>>
>> Regards,
>> Rob
>>
>> ----------------In a terminal---------------------------
>>
>> Robs-Intel:Downloads rob$ R_ARCH=/x86_64 R CMD INSTALL --configure-
>> args='--disable-carbon' rgl_0.83-3.tar.gz
>> * Installing to library ?/Library/Frameworks/R.framework/Resources/
>> library?
>> * Installing *source* package ?rgl? ...
>> checking for gcc... gcc-4.2 -arch x86_64 -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-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
>> checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO
>> C89... none needed
>> checking how to run the C preprocessor... gcc-4.2 -arch x86_64 -
>> std=gnu99 -E
>> checking for gcc... (cached) gcc-4.2 -arch x86_64 -std=gnu99
>> checking whether we are using the GNU C compiler... (cached) yes
>> checking whether gcc-4.2 -arch x86_64 -std=gnu99 accepts -g...
>> (cached) yes
>> checking for gcc-4.2 -arch x86_64 -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 /usr/X11/lib, headers /usr/X11/include
>> 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
>> ** arch - x86_64
>> g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
>> include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -
>> I/
>> System/Library/Frameworks/OpenGL.framework/Headers -DHAVE_PNG_H -I/
>> usr/X11/include/libpng12 -I/usr/X11/include -DDarwin -DNO_GL_PREFIX
>> -I/
>> usr/X11R6/include -DHAVE_FREETYPE -Iext/ftgl -I/usr/X11/include/
>> freetype2 -I/usr/X11/include -Iext -I/usr/local/include -g -O2 -
>> fPIC -g -O2 -c BBoxDeco.cpp -o BBoxDeco.o
>> g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/
>> include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -
>> I/
>> System/Library/Frameworks/OpenGL.framework/Headers -DHAVE_PNG_H -I/
>> usr/X11/include/libpng12 -I/usr/X11/include -DDarwin -DNO_GL_PREFIX
>> -I/
>> usr/X11R6/include -DHAVE_FREETYPE -Iext/ftgl -I/usr/X11/include/
>> freetype2 -I/usr/X11/include -Iext -I/usr/local/include -g -O2 -
>> fPIC -g -O2 -c Background.cpp -o Background.o
>> ...
>> g++-4.2 -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -
>> undefined dynamic_lookup -single_module -multiply_defined suppress -
>> L/
>> usr/local/lib -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 math.o osxgui.o osxlib.o par3d.o
>> pixmap.o render.o rglview.o scene.o select.o win32gui.o win32lib.o
>> x11gui.o x11lib.o -lGLU -lGL -framework OpenGL -dylib_file /System/
>> Library/Frameworks/OpenGL.framework/Versions/A/Libraries/
>> libGL.dylib:/
>> System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/
>> libGL.dylib -L/usr/X11/lib -lpng12 -L/usr/X11/lib -lX11 -L/usr/X11/
>> lib -lfreetype -lz -Wl,-framework,CoreServices -Wl,-
>> framework,ApplicationServices -F/Library/Frameworks/R.framework/.. -
>> framework R -Wl,-framework -Wl,CoreFoundation
>> ** R
>> ** demo
>> ** inst
>> ** preparing package for lazy loading
>> ** help
>> *** installing help indices
>> >>> Building/Updating help pages for package 'rgl'
>> Formats: text html latex example
>> 3dobjects text html latex example
>> aspect3d text html latex example
>> axes3d text html latex example
>> bbox text html latex example
>> bg text html latex example
>> ...
>> spin3d text html latex example
>> sprites text html latex example
>> subdivision3d text html latex example
>> surface text html latex example
>> surface3d text html latex example
>> texts text html latex example
>> viewpoint text html latex example
>> ** building package indices ...
>> * DONE (rgl)
>> Robs-Intel:Downloads rob$
>>
>>
>>
>> ----------------Inside
>> R.app------------------------------------------------------
>>
>> trying URL 'http://cran.stat.ucla.edu/src/contrib/rgl_0.83-3.tar.gz'
>> Content type 'application/x-tar' length 1653379 bytes (1.6 Mb)
>> opened URL
>> ==================================================
>> downloaded 1.6 Mb
>>
>> * Installing *source* package ?rgl? ...
>> checking for gcc... gcc-4.2 -arch x86_64 -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-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
>> checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO
>> C89... none needed
>> checking how to run the C preprocessor... gcc-4.2 -arch x86_64 -
>> std=gnu99 -E
>> checking for gcc... (cached) gcc-4.2 -arch x86_64 -std=gnu99
>> checking whether we are using the GNU C compiler... (cached) yes
>> checking whether gcc-4.2 -arch x86_64 -std=gnu99 accepts -g...
>> (cached) yes
>> checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO
>> C89... (cached) none needed
>> checking for libpng-config... no
>> checking libpng... checking for grep that handles long lines and -
>> e... /usr/bin/grep
>> checking for egrep... /usr/bin/grep -E
>> checking for ANSI C header files... rm: conftest.dSYM: is a directory
>> rm: conftest.dSYM: is a directory
>> yes
>> checking for sys/types.h... yes
>> checking for sys/stat.h... yes
>> checking for stdlib.h... yes
>> checking for string.h... yes
>> checking for memory.h... yes
>> checking for strings.h... yes
>> checking for inttypes.h... yes
>> checking for stdint.h... yes
>> checking for unistd.h... yes
>> checking png.h usability... no
>> checking png.h presence... no
>> checking for png.h... no
>> checking for png_read_update_info in -lpng... no
>> configure: libpng header and lib found
>> configure: using libpng dynamic linkage
>> checking for X... no
>> configure: error: X11 not found but required, configure aborted.
>> ERROR: configuration failed for package ?rgl?
>> * Removing ?/Library/Frameworks/R.framework/Versions/2.9/Resources/
>> library/rgl?
>> * Restoring previous ?/Library/Frameworks/R.framework/Versions/2.9/
>> Resources/library/rgl?
>>
>> The downloaded packages are in
>> ?/private/var/folders/RC/RC96PNSWFMORQM4VyHEgik+++TI/-Tmp-/
>> RtmpZR2jwu/
>> downloaded_packages?
>> >
>>
>>
>> On Mar 2, 2009, at 4:13 PM, David Winsemius wrote:
>>
>>> I tried to install the current version of rgl on R-forge from source
>>> from the 64 bit R-GUI and get this error during installation :
>>>
>>> <entire listing copied below>
>>> checking for X... no
>>> configure: error: X11 not found but required, configure aborted.
>>> ERROR: configuration failed for package 'rgl'
>>> ** Removing '/Library/Frameworks/R.framework/Resources/library/rgl'
>>> ** Restoring previous '/Library/Frameworks/R.framework/Resources/
>>> library/rgl'
>>>
>>> The downloaded packages are in
>>> /private/var/folders/xS/xSUsVXTIHEiP7OLJg2OXmU+++TI/-Tmp-/
>>> Rtmp3Z2KtQ/downloaded_packages
>>>
>>> I do have an X11 installation, XQuartz 2.3.1 (xorg-server 1.4.2-
>>> apple17), and wonder whether I need to do something to make X11's
>>> availability visible to the Installer? I believe that it loads under
>>> the 32 bit GUI although the version appears to be 0.82-2.
>>>
>>> --
>>> David Winsemius
>>>
>>>> sessionInfo()
>>> R version 2.8.1 Patched (2009-01-07 r47515)
>>> i386-apple-darwin9.6.0
>>>
>>> locale:
>>> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>>>
>>> attached base packages:
>>> [1] stats graphics grDevices utils datasets methods base
>>>
>>> other attached packages:
>>> [1] mapproj_1.1-7.2 maps_2.0-40
>>>
>>> loaded via a namespace (and not attached):
>>> [1] grid_2.8.1 lattice_0.17-20 tools_2.8.1
>>> Warning message:
>>> In install.packages(c("rgl"), lib = "/Library/Frameworks/
>>> R.framework/
>>> Resources/library/", :
>>> installation of package 'rgl' had non-zero exit status
>>>> capabilities()
>>> jpeg png tiff tcltk X11 aqua http/ftp
>>> sockets libxml fifo cledit iconv
>>> TRUE TRUE FALSE TRUE TRUE TRUE TRUE
>>> TRUE TRUE TRUE TRUE TRUE
>>> NLS profmem cairo
>>> TRUE FALSE TRUE
>>> ---- intall listing follows----
>>> trying URL 'http://R-Forge.R-project.org/src/contrib/rgl_0.83-751.tar.gz'
>>> Content type 'application/x-gzip' length 1656674 bytes (1.6 Mb)
>>> opened URL
>>> ==================================================
>>> downloaded 1.6 Mb
>>>
>>> * Installing *source* package 'rgl' ...
>>> checking for gcc... gcc-4.2 -arch x86_64 -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-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
>>> checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO
>>> C89... none needed
>>> checking how to run the C preprocessor... gcc-4.2 -arch x86_64 -
>>> std=gnu99 -E
>>> checking for gcc... (cached) gcc-4.2 -arch x86_64 -std=gnu99
>>> checking whether we are using the GNU C compiler... (cached) yes
>>> checking whether gcc-4.2 -arch x86_64 -std=gnu99 accepts -g...
>>> (cached) yes
>>> checking for gcc-4.2 -arch x86_64 -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... no
>>> configure: error: X11 not found but required, configure aborted.
>>> ERROR: configuration failed for package 'rgl'
>>> ** Removing '/Library/Frameworks/R.framework/Resources/library/rgl'
>>> ** Restoring previous '/Library/Frameworks/R.framework/Resources/
>>> library/rgl'
>>>
>>> The downloaded packages are in
>>> /private/var/folders/xS/xSUsVXTIHEiP7OLJg2OXmU+++TI/-Tmp-/
>>> Rtmp3Z2KtQ/downloaded_packages
>>> ----end listing----
>>>
>>> On Mar 2, 2009, at 4:39 PM, Duncan Murdoch wrote:
>>>
>>>> On 3/2/2009 2:48 PM, chaogai wrote:
>>>>> Oops, sorry
>>>>> R version 2.8.1 (2008-12-22)
>>>>> i686-pc-linux-gnu
>>>>> locale:
>>>>> LC_CTYPE
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_NUMERIC
>>>>> =
>>>>> C
>>>>> ;LC_TIME
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_COLLATE
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_MONETARY
>>>>> =
>>>>> C
>>>>> ;LC_MESSAGES
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_PAPER
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_NAME
>>>>> =
>>>>> C
>>>>> ;LC_ADDRESS
>>>>> =C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>>>>> attached base packages:
>>>>> [1] tcltk stats graphics grDevices utils datasets
>>>>> methods
>>>>> [8] base
>>>>> other attached packages:
>>>>> [1] rgl_0.81 svGUI_0.9-44 svSocket_0.9-43 svMisc_0.9-46
>>>>
>>>> 0.81 isn't the current version of rgl on CRAN. Please try that
>>>> one, or even better, the development version on R-forge.
>>>>
>>>> Duncan Murdoch
>>>>> Duncan Murdoch wrote:
>>>>>> On 3/2/2009 2:00 PM, chaogai wrote:
>>>>>>> Whatever it is, it is also happening on my Acer, Suse 11.1, 32
>>>>>>> bits,
>>>>>>> self build R.
>>>>>>
>>>>>> Versions of R and rgl?
>>>>>>
>>>>>> Duncan Murdoch
>>>>>>
>>>>>>>
>>>>>>> Kees
>>>>>>>
>>>>>>> Bo Zhou wrote:
>>>>>>>> Thanks Duncan.
>>>>>>>>
>>>>>>>> I haven't got a chance to try it in windows yet. But I won't be
>>>>>>>> surprised if it's my driver's fault. I had OpenGL problems on
>>>>>>>> this
>>>>>>>> dell laptop before.....
>>>>>>>>
>>>>>>>>
>>>>>>>>> Date: Sun, 1 Mar 2009 18:29:20 -0500
>>>>>>>>> From: murdoch at stats.uwo.ca
>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>> CC: remkoduursma at gmail.com; r-help at r-project.org
>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>
>>>>>>>>> On 01/03/2009 5:54 PM, Bo Zhou wrote:
>>>>>>>>>
>>>>>>>>>> site down......
>>>>>>>>>>
>>>>>>>>>> here is the code
>>>>>>>>>>
>>>>>>>>>> library(rgl)
>>>>>>>>>>
>>>>>>>>>> plot1:
>>>>>>>>>> persp3d(x=1:11,y=1:210,z=matrix(rep(1,11*210),
>>>>>>>>>> 11,210),col=matrix(rep("#FF0000",11*210),11,210))
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> plot2:
>>>>>>>>>> persp3d(x=1:11,y=1:10,z=matrix(rep(1,11*10),
>>>>>>>>>> 11,10),col=matrix(rep("#FF0000",11*10),11,10))
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> Works fine on Mac OS 10.5 too. Looks like a bug in your
>>>>>>>>> OpenGL
>>>>>>>>> driver...
>>>>>>>>>
>>>>>>>>> Duncan Murdoch
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> Thanks!
>>>>>>>>>>
>>>>>>>>>> Bo
>>>>>>>>>>
>>>>>>>>>>> Date: Mon, 2 Mar 2009 09:28:31 +1100
>>>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>>> From: remkoduursma at gmail.com
>>>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>>>>
>>>>>>>>>>> I would not mind trying, but the link no longer works...
>>>>>>>>>>>
>>>>>>>>>>> Remko
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> -------------------------------------------------
>>>>>>>>>>> Remko Duursma
>>>>>>>>>>> Post-Doctoral Fellow
>>>>>>>>>>>
>>>>>>>>>>> Centre for Plant and Food Science
>>>>>>>>>>> University of Western Sydney
>>>>>>>>>>> Hawkesbury Campus
>>>>>>>>>>> Richmond NSW 2753
>>>>>>>>>>>
>>>>>>>>>>> Dept of Biological Science
>>>>>>>>>>> Macquarie University
>>>>>>>>>>> North Ryde NSW 2109
>>>>>>>>>>> Australia
>>>>>>>>>>>
>>>>>>>>>>> Mobile: +61 (0)422 096908
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Mon, Mar 2, 2009 at 8:16 AM, Bo Zhou <bozhou1981 at hotmail.com
>>>>>>>>>>>>
>>>>>>>>>>> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> Thanks, Duncan.
>>>>>>>>>>>>
>>>>>>>>>>>> What's your platform? Could this be an issues related to my
>>>>>>>>>>>> platform? I'm on Ubuntu 8.10 64bit using cran's R
>>>>>>>>>>>> package. I
>>>>>>>>>>>> built rgl package on my machine using install.packages().
>>>>>>>>>>>> I'm
>>>>>>>>>>>> going to give it a try in windows.
>>>>>>>>>>>>
>>>>>>>>>>>> I would be very grateful if anyone using similar setup
>>>>>>>>>>>> could
>>>>>>>>>>>> give it a try.
>>>>>>>>>>>>
>>>>>>>>>>>> Thanks,
>>>>>>>>>>>> Bo
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>> Date: Sun, 1 Mar 2009 07:03:10 -0500
>>>>>>>>>>>>> From: murdoch at stats.uwo.ca
>>>>>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>>>>>> CC: r-help at r-project.org
>>>>>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>>>>>
>>>>>>>>>>>>> On 28/02/2009 4:20 PM, Bo Zhou wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Hi guys,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> I hit on a problem when I use rgl.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Could you try to run the code here in this link and see
>>>>>>>>>>>>>> why
>>>>>>>>>>>>>> the first persp3d gives a red bounding box and the second
>>>>>>>>>>>>>> shows black?
>>>>>>>>>>>>>>
>>>>>>>>>>>>> They both show as black on my system.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Duncan Murdoch
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>> http://rafb.net/p/g1i7ur33.html
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> (sorry for not pasting the code here directly but my
>>>>>>>>>>>>>> previous
>>>>>>>>>>>>>> email got filtered by this list so I suspect my code
>>>>>>>>>>>>>> looks
>>>>>>>>>>>>>> like spam to the spam filter)
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> I'm expecting black color to be the right result but the
>>>>>>>>>>>>>> code
>>>>>>>>>>>>>> is virtually same except different data size. Looks like
>>>>>>>>>>>>>> a mem
>>>>>>>>>>>>>> bug to me?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> BTW you will need to install the rgl package
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Thanks,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Bo
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> ______________________________________________
>>>>>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>>>>>> and provide commented, minimal, self-contained,
>>>>>>>>>>>>>> reproducible
>>>>>>>>>>>>>> code.
>>>>>>>>>>>>>>
>>>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>>>
>>>>>>>>>>>> ______________________________________________
>>>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>>>> and provide commented, minimal, self-contained,
>>>>>>>>>>>> reproducible code.
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>
>>>>>>>>>> ______________________________________________
>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>>>>> code.
>>>>>>>>>>
>>>>>>>>
>>>>>>>> _________________________________________________________________
>>>>>>>> Hotmail? is up to 70% faster. Now good news travels really
>>>>>>>> fast.
>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>>
>>>>>>>>
>>>>>>>> ______________________________________________
>>>>>>>> R-help at r-project.org mailing list
>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>> PLEASE do read the posting guide
>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>>> code.
>>>>>>>>
>>>>>>>
>>>>>>> ______________________________________________
>>>>>>> R-help at r-project.org mailing list
>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>> PLEASE do read the posting guide
>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>> code.
>>>>>>
>>>>
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible code.
>>>
>>> _______________________________________________
>>> R-SIG-Mac mailing list
>>> R-SIG-Mac at stat.math.ethz.ch
>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
>> On Mar 2, 2009, at 4:13 PM, David Winsemius wrote:
>>
>>> I tried to install the current version of rgl on R-forge from source
>>> from the 64 bit R-GUI and get this error during installation :
>>>
>>> <entire listing copied below>
>>> checking for X... no
>>> configure: error: X11 not found but required, configure aborted.
>>> ERROR: configuration failed for package 'rgl'
>>> ** Removing '/Library/Frameworks/R.framework/Resources/library/rgl'
>>> ** Restoring previous '/Library/Frameworks/R.framework/Resources/
>>> library/rgl'
>>>
>>> The downloaded packages are in
>>> /private/var/folders/xS/xSUsVXTIHEiP7OLJg2OXmU+++TI/-Tmp-/
>>> Rtmp3Z2KtQ/downloaded_packages
>>>
>>> I do have an X11 installation, XQuartz 2.3.1 (xorg-server 1.4.2-
>>> apple17), and wonder whether I need to do something to make X11's
>>> availability visible to the Installer? I believe that it loads under
>>> the 32 bit GUI although the version appears to be 0.82-2.
>>>
>>> --
>>> David Winsemius
>>>
>>>> sessionInfo()
>>> R version 2.8.1 Patched (2009-01-07 r47515)
>>> i386-apple-darwin9.6.0
>>>
>>> locale:
>>> en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8
>>>
>>> attached base packages:
>>> [1] stats graphics grDevices utils datasets methods base
>>>
>>> other attached packages:
>>> [1] mapproj_1.1-7.2 maps_2.0-40
>>>
>>> loaded via a namespace (and not attached):
>>> [1] grid_2.8.1 lattice_0.17-20 tools_2.8.1
>>> Warning message:
>>> In install.packages(c("rgl"), lib = "/Library/Frameworks/
>>> R.framework/
>>> Resources/library/", :
>>> installation of package 'rgl' had non-zero exit status
>>>> capabilities()
>>> jpeg png tiff tcltk X11 aqua http/ftp
>>> sockets libxml fifo cledit iconv
>>> TRUE TRUE FALSE TRUE TRUE TRUE TRUE
>>> TRUE TRUE TRUE TRUE TRUE
>>> NLS profmem cairo
>>> TRUE FALSE TRUE
>>> ---- intall listing follows----
>>> trying URL 'http://R-Forge.R-project.org/src/contrib/rgl_0.83-751.tar.gz'
>>> Content type 'application/x-gzip' length 1656674 bytes (1.6 Mb)
>>> opened URL
>>> ==================================================
>>> downloaded 1.6 Mb
>>>
>>> * Installing *source* package 'rgl' ...
>>> checking for gcc... gcc-4.2 -arch x86_64 -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-4.2 -arch x86_64 -std=gnu99 accepts -g... yes
>>> checking for gcc-4.2 -arch x86_64 -std=gnu99 option to accept ISO
>>> C89... none needed
>>> checking how to run the C preprocessor... gcc-4.2 -arch x86_64 -
>>> std=gnu99 -E
>>> checking for gcc... (cached) gcc-4.2 -arch x86_64 -std=gnu99
>>> checking whether we are using the GNU C compiler... (cached) yes
>>> checking whether gcc-4.2 -arch x86_64 -std=gnu99 accepts -g...
>>> (cached) yes
>>> checking for gcc-4.2 -arch x86_64 -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... no
>>> configure: error: X11 not found but required, configure aborted.
>>> ERROR: configuration failed for package 'rgl'
>>> ** Removing '/Library/Frameworks/R.framework/Resources/library/rgl'
>>> ** Restoring previous '/Library/Frameworks/R.framework/Resources/
>>> library/rgl'
>>>
>>> The downloaded packages are in
>>> /private/var/folders/xS/xSUsVXTIHEiP7OLJg2OXmU+++TI/-Tmp-/
>>> Rtmp3Z2KtQ/downloaded_packages
>>> ----end listing----
>>>
>>> On Mar 2, 2009, at 4:39 PM, Duncan Murdoch wrote:
>>>
>>>> On 3/2/2009 2:48 PM, chaogai wrote:
>>>>> Oops, sorry
>>>>> R version 2.8.1 (2008-12-22)
>>>>> i686-pc-linux-gnu
>>>>> locale:
>>>>> LC_CTYPE
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_NUMERIC
>>>>> =
>>>>> C
>>>>> ;LC_TIME
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_COLLATE
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_MONETARY
>>>>> =
>>>>> C
>>>>> ;LC_MESSAGES
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_PAPER
>>>>> =
>>>>> en_US
>>>>> .UTF
>>>>> -8
>>>>> ;LC_NAME
>>>>> =
>>>>> C
>>>>> ;LC_ADDRESS
>>>>> =C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>>>>> attached base packages:
>>>>> [1] tcltk stats graphics grDevices utils datasets
>>>>> methods
>>>>> [8] base
>>>>> other attached packages:
>>>>> [1] rgl_0.81 svGUI_0.9-44 svSocket_0.9-43 svMisc_0.9-46
>>>>
>>>> 0.81 isn't the current version of rgl on CRAN. Please try that
>>>> one, or even better, the development version on R-forge.
>>>>
>>>> Duncan Murdoch
>>>>> Duncan Murdoch wrote:
>>>>>> On 3/2/2009 2:00 PM, chaogai wrote:
>>>>>>> Whatever it is, it is also happening on my Acer, Suse 11.1, 32
>>>>>>> bits,
>>>>>>> self build R.
>>>>>>
>>>>>> Versions of R and rgl?
>>>>>>
>>>>>> Duncan Murdoch
>>>>>>
>>>>>>>
>>>>>>> Kees
>>>>>>>
>>>>>>> Bo Zhou wrote:
>>>>>>>> Thanks Duncan.
>>>>>>>>
>>>>>>>> I haven't got a chance to try it in windows yet. But I won't be
>>>>>>>> surprised if it's my driver's fault. I had OpenGL problems on
>>>>>>>> this
>>>>>>>> dell laptop before.....
>>>>>>>>
>>>>>>>>
>>>>>>>>> Date: Sun, 1 Mar 2009 18:29:20 -0500
>>>>>>>>> From: murdoch at stats.uwo.ca
>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>> CC: remkoduursma at gmail.com; r-help at r-project.org
>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>
>>>>>>>>> On 01/03/2009 5:54 PM, Bo Zhou wrote:
>>>>>>>>>
>>>>>>>>>> site down......
>>>>>>>>>>
>>>>>>>>>> here is the code
>>>>>>>>>>
>>>>>>>>>> library(rgl)
>>>>>>>>>>
>>>>>>>>>> plot1:
>>>>>>>>>> persp3d(x=1:11,y=1:210,z=matrix(rep(1,11*210),
>>>>>>>>>> 11,210),col=matrix(rep("#FF0000",11*210),11,210))
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> plot2:
>>>>>>>>>> persp3d(x=1:11,y=1:10,z=matrix(rep(1,11*10),
>>>>>>>>>> 11,10),col=matrix(rep("#FF0000",11*10),11,10))
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>> Works fine on Mac OS 10.5 too. Looks like a bug in your
>>>>>>>>> OpenGL
>>>>>>>>> driver...
>>>>>>>>>
>>>>>>>>> Duncan Murdoch
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> Thanks!
>>>>>>>>>>
>>>>>>>>>> Bo
>>>>>>>>>>
>>>>>>>>>>> Date: Mon, 2 Mar 2009 09:28:31 +1100
>>>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>>> From: remkoduursma at gmail.com
>>>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>>>>
>>>>>>>>>>> I would not mind trying, but the link no longer works...
>>>>>>>>>>>
>>>>>>>>>>> Remko
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> -------------------------------------------------
>>>>>>>>>>> Remko Duursma
>>>>>>>>>>> Post-Doctoral Fellow
>>>>>>>>>>>
>>>>>>>>>>> Centre for Plant and Food Science
>>>>>>>>>>> University of Western Sydney
>>>>>>>>>>> Hawkesbury Campus
>>>>>>>>>>> Richmond NSW 2753
>>>>>>>>>>>
>>>>>>>>>>> Dept of Biological Science
>>>>>>>>>>> Macquarie University
>>>>>>>>>>> North Ryde NSW 2109
>>>>>>>>>>> Australia
>>>>>>>>>>>
>>>>>>>>>>> Mobile: +61 (0)422 096908
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Mon, Mar 2, 2009 at 8:16 AM, Bo Zhou <bozhou1981 at hotmail.com
>>>>>>>>>>>>
>>>>>>>>>>> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> Thanks, Duncan.
>>>>>>>>>>>>
>>>>>>>>>>>> What's your platform? Could this be an issues related to my
>>>>>>>>>>>> platform? I'm on Ubuntu 8.10 64bit using cran's R
>>>>>>>>>>>> package. I
>>>>>>>>>>>> built rgl package on my machine using install.packages().
>>>>>>>>>>>> I'm
>>>>>>>>>>>> going to give it a try in windows.
>>>>>>>>>>>>
>>>>>>>>>>>> I would be very grateful if anyone using similar setup
>>>>>>>>>>>> could
>>>>>>>>>>>> give it a try.
>>>>>>>>>>>>
>>>>>>>>>>>> Thanks,
>>>>>>>>>>>> Bo
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>> Date: Sun, 1 Mar 2009 07:03:10 -0500
>>>>>>>>>>>>> From: murdoch at stats.uwo.ca
>>>>>>>>>>>>> To: bozhou1981 at hotmail.com
>>>>>>>>>>>>> CC: r-help at r-project.org
>>>>>>>>>>>>> Subject: Re: [R] rgl persp3d bounding box color problem.
>>>>>>>>>>>>>
>>>>>>>>>>>>> On 28/02/2009 4:20 PM, Bo Zhou wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Hi guys,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> I hit on a problem when I use rgl.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Could you try to run the code here in this link and see
>>>>>>>>>>>>>> why
>>>>>>>>>>>>>> the first persp3d gives a red bounding box and the second
>>>>>>>>>>>>>> shows black?
>>>>>>>>>>>>>>
>>>>>>>>>>>>> They both show as black on my system.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Duncan Murdoch
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>> http://rafb.net/p/g1i7ur33.html
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> (sorry for not pasting the code here directly but my
>>>>>>>>>>>>>> previous
>>>>>>>>>>>>>> email got filtered by this list so I suspect my code
>>>>>>>>>>>>>> looks
>>>>>>>>>>>>>> like spam to the spam filter)
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> I'm expecting black color to be the right result but the
>>>>>>>>>>>>>> code
>>>>>>>>>>>>>> is virtually same except different data size. Looks like
>>>>>>>>>>>>>> a mem
>>>>>>>>>>>>>> bug to me?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> BTW you will need to install the rgl package
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Thanks,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Bo
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> ______________________________________________
>>>>>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>>>>>> and provide commented, minimal, self-contained,
>>>>>>>>>>>>>> reproducible
>>>>>>>>>>>>>> code.
>>>>>>>>>>>>>>
>>>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>>>
>>>>>>>>>>>> ______________________________________________
>>>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>>>> and provide commented, minimal, self-contained,
>>>>>>>>>>>> reproducible code.
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>> _________________________________________________________________
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> [[alternative HTML version deleted]]
>>>>>>>>>>
>>>>>>>>>> ______________________________________________
>>>>>>>>>> R-help at r-project.org mailing list
>>>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>>>> PLEASE do read the posting guide
>>>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>>>>> code.
>>>>>>>>>>
>>>>>>>>
>>>>>>>> _________________________________________________________________
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>>>>>>>> fast.
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>>>>>>>>
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>>
>>>>>>>>
>>>>>>>> ______________________________________________
>>>>>>>> R-help at r-project.org mailing list
>>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>>> PLEASE do read the posting guide
>>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>>> code.
>>>>>>>>
>>>>>>>
>>>>>>> ______________________________________________
>>>>>>> R-help at r-project.org mailing list
>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>>>>> PLEASE do read the posting guide
>>>>>>> http://www.R-project.org/posting-guide.html
>>>>>>> and provide commented, minimal, self-contained, reproducible
>>>>>>> code.
>>>>>>
>>>>
>>>> ______________________________________________
>>>> R-help at r-project.org mailing list
>>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>>> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
>>>> and provide commented, minimal, self-contained, reproducible code.
>>>
>>> _______________________________________________
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>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>
>>
>> [[alternative HTML version deleted]]
>>
>>
>
> --
> Brian D. Ripley, ripley at stats.ox.ac.uk
> Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/
> University of Oxford, Tel: +44 1865 272861 (self)
> 1 South Parks Road, +44 1865 272866 (PA)
> Oxford OX1 3TG, UK Fax: +44 1865 272595