[MacPorts] #35845: R-framework package 'agl' has undeclared dependencies
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+------------------------------------------ Reporter: me@… | Owner: macports-tickets@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Keywords: | Port: R-framework, R-app ---------------------------------+------------------------------------------ After installing R-framework and R-app, within either the R command install.packages("rgl") yields a failure to compile: {{{ In file included from Texture.hpp:14, from scene.h:18, from ABCLineSet.hpp:4, from ABCLineSet.cpp:1: opengl.hpp:24:19: error: GL/gl.h: No such file or directory opengl.hpp:25:20: error: GL/glu.h: No such file or directory make: *** [ABCLineSet.o] Error 1 ERROR: compilation failed for package ‘rgl’ }}} After some googling, it turns out that after installing the port 'mesa' the R command succeeds in the terminal interface to R-framework, but not in the R-app interface: {{{ mkdir -p AGL mv AGL/* . MAKINGAGL=TRUE /opt/local/Library/Frameworks/R.framework/Resources/bin/R CMD SHLIB -o aglrgl.so *.cpp *.c \ osx/*.mm osx/*.cpp mv: rename AGL/* to ./*: No such file or directory make: [aglrgl.so] Error 1 (ignored) /opt/local/bin/llvm-g++-4.2 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -pipe -O2 -m64 -fPIC -pipe -O2 -m64 -c x11gui.cpp -o x11gui.o /opt/local/bin/llvm-g++-4.2 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -pipe -O2 -m64 -fPIC -pipe -O2 -m64 -c x11lib.cpp -o x11lib.o /opt/local/bin/llvm-g++-4.2 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -fPIC -c osx/osxgui.mm -o osx/osxgui.o osx/osxgui.mm:9:2: error: #error Cocoa backend reguires FreeType font reneder make[1]: *** [osx/osxgui.o] Error 1 make: *** [aglrgl.so] Error 1 ERROR: compilation failed for package ‘rgl’ }}} -- Ticket URL: <https://trac.macports.org/ticket/35845> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+------------------------------------------ Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Keywords: | Port: R-framework, R-app ---------------------------------+------------------------------------------ Changes (by ryandesign@…): * owner: macports-tickets@… => kjell.konis@… -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:1> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+------------------------------------------ Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Keywords: | Port: R-framework, R-app ---------------------------------+------------------------------------------ Comment(by kjell.konis@…): Maintainer here - does it work if you install the freetype port? Unfortunately, R packages that have non R dependencies need those installed manually. The funny thing here is I'm pretty sure that the rgl package works on the official R binary release. I'll check and see. If I can, I'll add a fix to the R-framework port. (I am on vacation now so it'll probably be a while for that though). -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:2> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+--------------------------- Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Resolution: | Keywords: Port: R-framework, R-app | ---------------------------------+--------------------------- Comment (by me@…): Freetype was already installed. Recently updated macports & outdated ports; texlive-bin @2012_3+x11 gave a notice that “`XeTeX is built without support for Apple Type Services for Unicode Imaging (ATSUI) or Apple Advanced Typography (AAT). To enable it, build texlive-bin with the +atsui variant. Note that this will force texlive and all of its dependencies to be built 32-bit.`” (I'd rather keep everything 64-bit), and I followed the recommendation from TeXShop @2.47_0 that Lion users replace it with TeXShop3 @3.11_0. After the updates, installing rgl still appears to succeed in the terminal, and fails with the same error in R-app. I tried downloading RStudio, and it appears to succeed within RStudio. Is R-app starting R-framework in a different environment? Could it just be a wrong setting? I don't mind having to install dependencies manually, but I would prefer an error message like “R package 'rgl' requires external library 'mesa', which must be installed outside of R. If you're not sure how to do this, see `http://r-project.org/doc/deps#macports`.” I was installing rgl because Rcmdr depends on it, and I am able to run Rcmdr from terminal or Rstudio, so I don't expect the problem with R-app to prevent me from getting things done. -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:3> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+--------------------------- Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Resolution: | Keywords: Port: R-framework, R-app | ---------------------------------+--------------------------- Comment (by bcbarnes@…): I ran into this problem today while trying to install the igraph package via the R.app interface (OS X 10.8, latest Xcode/etc). Note, in the R.app GUI I was specifying to install dependencies and to install at "user level" from CRAN (sources). {{{ MAKINGAGL=TRUE /opt/local/Library/Frameworks/R.framework/Resources/bin/R CMD SHLIB -o aglrgl.so *.cpp *.c \ osx/*.mm osx/*.cpp mv: rename AGL/* to ./*: No such file or directory make: [aglrgl.so] Error 1 (ignored) /opt/local/bin/g++-mp-4.7 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -pipe -O2 -m64 -fPIC -pipe -O2 -m64 -c x11gui.cpp -o x11gui.o /opt/local/bin/g++-mp-4.7 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -pipe -O2 -m64 -fPIC -pipe -O2 -m64 -c x11lib.cpp -o x11lib.o I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -fPIC -c osx/osxgui.mm -o osx/osxgui.o make[1]: I/opt/local/Library/Frameworks/R.framework/Resources/include: No such file or directory make[1]: [osx/osxgui.o] Error 1 (ignored) /opt/local/bin/g++-mp-4.7 -I/opt/local/Library/Frameworks/R.framework/Resources/include -I/opt/local/Library/Frameworks/R.framework/Resources/include/x86_64 -DNDEBUG -DHAVE_PNG_H -DRGL_USE_COCOA -Iext -I/opt/local/include -pipe -O2 -m64 -fPIC -pipe -O2 -m64 -c osx/osxlib.cpp -o osx/osxlib.o /opt/local/bin/g++-mp-4.7 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/opt/local/lib -o aglrgl.so ABCLineSet.o BBoxDeco.o Background.o Color.o Disposable.o Light.o LineSet.o LineStripSet.o Material.o PlaneSet.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 glErrors.o glgui.o gui.o init.o par3d.o pixmap.o render.o rglmath.o rglview.o scene.o select.o win32gui.o win32lib.o x11gui.o x11lib.o gl2ps.o osx/osxgui.o osx/osxlib.o -lpng -framework Cocoa none -F/opt/local/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation g++-mp-4.7: error: osx/osxgui.o: No such file or directory g++-mp-4.7: error: none: No such file or directory make[1]: *** [aglrgl.so] Error 1 make: *** [aglrgl.so] Error 1 ERROR: compilation failed for package ‘rgl’ }}} There is some discussion of rgl problems elsewhere, too: http://www.mentby.com/Group/r-sig-mac/rgl-broken-with-2151.html http://www.mentby.com/Group/r-sig-mac/r-rgl-package-broke-with-r-2142.html for what it's worth, the igraph install ran at r terminal completed and the library(igraph) command succeeded after I restarted R.app. I do have mesa/freetype/etc installed via macports. -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:4> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies ---------------------------------+--------------------------- Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: new Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Resolution: | Keywords: Port: R-framework, R-app | ---------------------------------+--------------------------- Comment (by kjell.konis@…): It looks like the problem arose because the OBJC** environment stuff was not correctly copied from the configure environment to $RHOME/etc/Makeconf. The attached patch fixes this problem by directly setting the incorrect variables in post-destroot. If you want to install packages that have a configure script using R.app you need to use Sys.setenv (within R) to add your MacPorts installation to your path, otherwise configure can't find MacPorts provided components. If you run R in Terminal then R will inherit your environment, including the path. Packages installed this way should work fine (famous last words?) from R.app as well. Also, I removed tcltk from default variants because loading the newest version of tcltk causes R to crash. See bug #37107. -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:5> MacPorts <http://www.macports.org/> Ports system for Mac OS
#35845: R-framework package 'agl' has undeclared dependencies --------------------------------+--------------------------- Reporter: me@… | Owner: kjell.konis@… Type: defect | Status: closed Priority: Normal | Milestone: Component: ports | Version: 2.1.2 Resolution: fixed | Keywords: Port: R-framework R-app | --------------------------------+--------------------------- Changes (by larryv@…): * status: new => closed * resolution: => fixed * port: R-framework, R-app => R-framework R-app Comment: Fixed in r103614, although setting OBJCXX to `/usr/bin/g++` doesn’t seem quite kosher to me. Are you sure that shouldn’t be `${configure.cxx}` or something? -- Ticket URL: <https://trac.macports.org/ticket/35845#comment:7> MacPorts <http://www.macports.org/> Ports system for Mac OS
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