rgl install for R 3.7

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rgl install for R 3.7

Roger Koenker-3
I’ve installed R 3.7.0 on a new laptop running macos 10.14.5 and have managed to get most of my usual packages
to compile from source with a ~/.R/Makevars file that looks like this:

CC=/usr/local/clang8/bin/clang
CXX=/usr/local/clang8/bin/clang++
LDFLAGS=-L/usr/local/clang8/lib
CPPFLAGS=-I/usr/local/clang8/include -I/opt/X11/include/freetype2
FC=/usr/local/gfortran/bin/gfortran
FLIBS=-L/usr/local/gfortran/lib -lgfortran

As usual, the last challenge seems to be to get rgl installed.  Compilation _seems_ to go
smoothly, but I now see:


Error in dyn.load(file, DLLpath = DLLpath, ...) :
  unable to load shared object '/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so':
  dlopen(/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so, 6): Symbol not found: _FT_Attach_File
  Referenced from: /Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so


There is a comment somewhat after this about rgl requiring XQuartz, but I have  XQuartz 2.7.11 so I don’t
think that this is the problem.  Apparently, there is still a freetype problem, however I’m out of my depth at this
point.   Any suggestions would be most welcome.

Roger Koenker
Honorary Professor
Department of Economics, UCL
London  WC1H 0AX.


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Re: rgl install for R 3.7

Duncan Murdoch-2
On 02/06/2019 11:28 a.m., Koenker, Roger W wrote:

> I’ve installed R 3.7.0 on a new laptop running macos 10.14.5 and have managed to get most of my usual packages
> to compile from source with a ~/.R/Makevars file that looks like this:
>
> CC=/usr/local/clang8/bin/clang
> CXX=/usr/local/clang8/bin/clang++
> LDFLAGS=-L/usr/local/clang8/lib
> CPPFLAGS=-I/usr/local/clang8/include -I/opt/X11/include/freetype2
> FC=/usr/local/gfortran/bin/gfortran
> FLIBS=-L/usr/local/gfortran/lib -lgfortran
>
> As usual, the last challenge seems to be to get rgl installed.  Compilation _seems_ to go
> smoothly, but I now see:
>
>
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared object '/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so':
>    dlopen(/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so, 6): Symbol not found: _FT_Attach_File
>    Referenced from: /Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so
>
>
> There is a comment somewhat after this about rgl requiring XQuartz, but I have  XQuartz 2.7.11 so I don’t
> think that this is the problem.  Apparently, there is still a freetype problem, however I’m out of my depth at this
> point.   Any suggestions would be most welcome.
>

I'm not up to date on MacOS (I have 10.13.6) or clang.  I'm compiling
with something that calls itself gcc, but gcc --version gives

Apple LLVM version 9.0.0 (clang-900.0.39.2)

So this isn't very relevant, but for what it's worth, rgl compiles and
loads fine in the current R-devel (r76642).

Duncan Murdoch

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Re: rgl install for R 3.7

Prof Brian Ripley
In reply to this post by Roger Koenker-3
On 02/06/2019 16:28, Koenker, Roger W wrote:
> I’ve installed R 3.7.0 on a new laptop running macos 10.14.5 and have managed to get most of my usual packages

I presume 'R 3.7.0' is R-devel: it is not released and may never be
released under that version.

> to compile from source with a ~/.R/Makevars file that looks like this:
>
> CC=/usr/local/clang8/bin/clang
> CXX=/usr/local/clang8/bin/clang++
> LDFLAGS=-L/usr/local/clang8/lib
> CPPFLAGS=-I/usr/local/clang8/include -I/opt/X11/include/freetype2

I suspect you don't want the second: if you have pkg-config it should
find include paths for you.

> FC=/usr/local/gfortran/bin/gfortran
> FLIBS=-L/usr/local/gfortran/lib -lgfortran
>
> As usual, the last challenge seems to be to get rgl installed.  Compilation _seems_ to go
> smoothly, but I now see:
>
>
> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>    unable to load shared object '/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so':
>    dlopen(/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so, 6): Symbol not found: _FT_Attach_File
>    Referenced from: /Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so

Perhaps you should show the linking line.  A similar setup works for me:

configure: Darwin, so ensuring /opt/X11/bin is at the head of the PATH...
checking for pkg-config... yes
...

Do you have pkg-config (it is not a standard part of macOS, but is
available on SU's site -- see the R-admin manual)?  You may need to set
its path: for rgl I used

PKG_CONFIG_PATH=/usr/local/lib/pkgconfig:/usr/lib/pkgconfig

(which should be the default) but for a few packages (Cairo gdtools rsvg)

PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr/lib/pkgconfig

/usr/local/clang8/bin/clang++ -std=gnu++11 -dynamiclib
-Wl,-headerpad_max_install_names -undefined dynamic_lookup
-single_module -multiply_defined suppress -L/Users/ripley/R/R-devel/lib
-L/usr/local/clang8/lib -L/usr/local/lib -o rgl.so ABCLineSet.o
BBoxDeco.o Background.o ClipPlane.o Color.o Disposable.o Light.o
LineSet.o LineStripSet.o Material.o NULLgui.o PlaneSet.o PointSet.o
PrimitiveSet.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 par3d.o pixmap.o platform.o
pretty.o render.o rglmath.o rglview.o scene.o select.o subscene.o
win32gui.o win32lib.o x11gui.o x11lib.o -lGLU -lGL -framework GLKit
-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/local/lib -lpng16 -L/usr/X11/lib -lX11 -L/usr/local/lib
-lfreetype -L/Users/ripley/R/R-devel/lib -lR -Wl,-framework
-Wl,CoreFoundation

so that is statically linking libfreetype from /usr/local/lib and
installed from
https://mac.r-project.org/libs/freetype-2.5.5-darwin.13-x86_64.tar.gz .
And that provides a freetype2.pc file, so

% pkg-config freetype2 --cflags
-I/usr/local/include/freetype2 -I/usr/local/include/libpng16
% pkg-config freetype2 --libs
-L/usr/local/lib -lfreetype



> There is a comment somewhat after this about rgl requiring XQuartz, but I have  XQuartz 2.7.11 so I don’t
> think that this is the problem.  Apparently, there is still a freetype problem, however I’m out of my depth at this
> point.   Any suggestions would be most welcome.
>
> Roger Koenker
> Honorary Professor
> Department of Economics, UCL
> London  WC1H 0AX.


--
Brian D. Ripley,                  [hidden email]
Emeritus Professor of Applied Statistics, University of Oxford

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Re: rgl install for R 3.7

Roger Koenker-3
Many thanks,  I couldn’t find the right way to convince R that freetype was installed in /opt/X11 but installing it
from http://mac.r-project.org/libs/ into /usr/local worked immediately without any change in my Makevars file.


Roger Koenker
[hidden email]<mailto:[hidden email]>
Department of Economics, UCL
London  WC1H 0AX.


On Jun 2, 2019, at 7:42 PM, Prof Brian Ripley <[hidden email]<mailto:[hidden email]>> wrote:

On 02/06/2019 16:28, Koenker, Roger W wrote:
I’ve installed R 3.7.0 on a new laptop running macos 10.14.5 and have managed to get most of my usual packages

I presume 'R 3.7.0' is R-devel: it is not released and may never be released under that version.

to compile from source with a ~/.R/Makevars file that looks like this:
CC=/usr/local/clang8/bin/clang
CXX=/usr/local/clang8/bin/clang++
LDFLAGS=-L/usr/local/clang8/lib
CPPFLAGS=-I/usr/local/clang8/include -I/opt/X11/include/freetype2

I suspect you don't want the second: if you have pkg-config it should find include paths for you.

FC=/usr/local/gfortran/bin/gfortran
FLIBS=-L/usr/local/gfortran/lib -lgfortran
As usual, the last challenge seems to be to get rgl installed.  Compilation _seems_ to go
smoothly, but I now see:
Error in dyn.load(file, DLLpath = DLLpath, ...) :
  unable to load shared object '/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so':
  dlopen(/Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so, 6): Symbol not found: _FT_Attach_File
  Referenced from: /Library/Frameworks/R.framework/Versions/3.7/Resources/library/00LOCK-rgl/00new/rgl/libs/rgl.so

Perhaps you should show the linking line.  A similar setup works for me:

configure: Darwin, so ensuring /opt/X11/bin is at the head of the PATH...
checking for pkg-config... yes
...

Do you have pkg-config (it is not a standard part of macOS, but is available on SU's site -- see the R-admin manual)?  You may need to set its path: for rgl I used

PKG_CONFIG_PATH=/usr/local/lib/pkgconfig:/usr/lib/pkgconfig

(which should be the default) but for a few packages (Cairo gdtools rsvg)

PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr/lib/pkgconfig

/usr/local/clang8/bin/clang++ -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Users/ripley/R/R-devel/lib -L/usr/local/clang8/lib -L/usr/local/lib -o rgl.so ABCLineSet.o BBoxDeco.o Background.o ClipPlane.o Color.o Disposable.o Light.o LineSet.o LineStripSet.o Material.o NULLgui.o PlaneSet.o PointSet.o PrimitiveSet.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 par3d.o pixmap.o platform.o pretty.o render.o rglmath.o rglview.o scene.o select.o subscene.o win32gui.o win32lib.o x11gui.o x11lib.o -lGLU -lGL -framework GLKit -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/local/lib -lpng16 -L/usr/X11/lib -lX11 -L/usr/local/lib -lfreetype -L/Users/ripley/R/R-devel/lib -lR -Wl,-framework -Wl,CoreFoundation

so that is statically linking libfreetype from /usr/local/lib and installed from https://mac.r-project.org/libs/freetype-2.5.5-darwin.13-x86_64.tar.gz . And that provides a freetype2.pc file, so

% pkg-config freetype2 --cflags
-I/usr/local/include/freetype2 -I/usr/local/include/libpng16
% pkg-config freetype2 --libs
-L/usr/local/lib -lfreetype



There is a comment somewhat after this about rgl requiring XQuartz, but I have  XQuartz 2.7.11 so I don’t
think that this is the problem.  Apparently, there is still a freetype problem, however I’m out of my depth at this
point.   Any suggestions would be most welcome.
Roger Koenker
Honorary Professor
Department of Economics, UCL
London  WC1H 0AX.


--
Brian D. Ripley,                  [hidden email]<mailto:[hidden email]>
Emeritus Professor of Applied Statistics, University of Oxford


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