Hi! I've just installed R on my OS X 10.9 and was trying to make arrayQualityMetrics package work. I've installed it via the biocLite Bioconductor script, and everything was apparently fine. But when I tried to load the package, I've got an issue with the Cairo package...
Then I tried to load only Cairo: > library("Cairo") Error : .onLoad failed in loadNamespace() for 'Cairo', details: call: dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared object '/Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so': dlopen(/Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so, 6): Library not loaded: /opt/X11/lib/libXrender.1.dylib Referenced from: /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so Reason: image not found Error: package or namespace load failed for 'Cairo' > traceback() 2: stop(gettextf("package or namespace load failed for %s", sQuote(package)), call. = FALSE, domain = NA) 1: library(Cairo) Verified it version and dependencies: > packageDescription("Cairo") Package: Cairo Version: 1.5-6 Title: [...] Author: Simon Urbanek <simon.urba...@r-project.org>, Jeffrey Horner < jeff.hor...@vanderbilt.edu> Maintainer: Simon Urbanek <simon.urba...@r-project.org> Depends: R (>= 2.4.0) Suggests: png Enhances: FastRWeb Description: [...] SystemRequirements: cairo (>= 1.2 http://www.cairographics.org/) URL: http://www.rforge.net/Cairo/ Packaged: 2014-06-26 14:50:25 UTC; svnuser NeedsCompilation: yes Repository: CRAN Date/Publication: 2014-06-26 17:15:22 Built: R 3.1.0; x86_64-apple-darwin13.1.0; 2014-06-27 05:04:27 UTC; unix -- File: /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/Meta/package.rds Tried to update it and got another error/warning: > upgrade.packages("Cairo") Warning message: In doTryCatch(return(expr), name, parentenv, handler) : unable to load shared object '/Library/Frameworks/R.framework/Resources/modules//R_X11.so': dlopen(/Library/Frameworks/R.framework/Resources/modules//R_X11.so, 6): Library not loaded: /opt/X11/lib/libSM.6.dylib Referenced from: /Library/Frameworks/R.framework/Resources/modules//R_X11.so Reason: image not found > traceback() No traceback available And finally: > sessionInfo() R version 3.1.1 (2014-07-10) Platform: x86_64-apple-darwin13.1.0 (64-bit) locale: [1] C/UTF-8/C/C/C/C attached base packages: [1] stats graphics grDevices utils datasets methods base loaded via a namespace (and not attached): [1] tools_3.1.1 > pack packBits packageEvent packageSlot packageStatus package.skeleton packageHasNamespace packageSlot<- packageVersion packageDescription packageName packageStartupMessage package_version I've also verified the cairo.os file cited in the first error message, and it was there: $ file /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so: Mach-O 64-bit dynamically linked shared library x86_64 $ ls -lh /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so -rwxrwxr-x 1 root admin 3.2M Jun 27 02:04 /Library/Frameworks/R.framework/Versions/3.1/Resources/library/Cairo/libs/Cairo.so I have no idea of what's going wrong. Somebody could help me? Thank you, and sorry for the bad English. -- *Leonardo Gama*, acadêmico Ciências Moleculares / Medicina Universidade de São Paulo, Brasil [[alternative HTML version deleted]]
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