Hi Kaspar: There is an issue of where Xcode puts headers. I have posted on this previously. I did the same update as you, and not only doesn't Xcode put the headers where R expects, it appears to delete the existing headers.
Anyhow, try running the following and see if your problems go away: > sudo installer -pkg \ > /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg > \ > -target / -Roy > On Apr 24, 2019, at 8:36 AM, Kasper Daniel Hansen > <kasperdanielhan...@gmail.com> wrote: > > I am on Mojave. I recently updated to Xcode 10.2.1 and I did the associated > update of the command line tools. Following this, I reinstalled clang6 and > gfortran 6 from CRAN. > > When I use the clang6 compiler from CRAN, it is unable to find stdio.h. > > When I compare the include path from clang6 to the Apple suppled clang with > `$CC -E - -v` I get > > with Apple clang > #include <...> search starts here: > /usr/local/include > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib/clang/10.0.1/include > /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include > /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.14.sdk/usr/include > /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.14.sdk/System/Library/Frameworks > (framework directory) > End of search list. > > with clang6 from CRAN > #include <...> search starts here: > /usr/local/include > /usr/local/clang6/lib/clang/6.0.0/include > /System/Library/Frameworks (framework directory) > /Library/Frameworks (framework directory) > End of search list. > > Did Apple move the headers around? Or have I somehow hosed my system? > > Best, > Kasper > > [[alternative HTML version deleted]] > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac ********************** "The contents of this message do not reflect any position of the U.S. Government or NOAA." ********************** Roy Mendelssohn Supervisory Operations Research Analyst NOAA/NMFS Environmental Research Division Southwest Fisheries Science Center ***Note new street address*** 110 McAllister Way Santa Cruz, CA 95060 Phone: (831)-420-3666 Fax: (831) 420-3980 e-mail: roy.mendelss...@noaa.gov www: http://www.pfeg.noaa.gov/ "Old age and treachery will overcome youth and skill." "From those who have been given much, much will be expected" "the arc of the moral universe is long, but it bends toward justice" -MLK Jr. _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
