[Rd] #include_next <stdio.h> not found

[Koenker, Roger W]

Yes,  this did the trick, thanks very much!  I’m cc’ing r-devel  just for the record.


Roger Koenker
r.koenker using ucl.ac.uk<mailto:r.koenker using ucl.ac.uk>
Department of Economics, UCL
London  WC1H 0AX.


On Aug 7, 2019, at 4:55 PM, Steven Dirkse <sdirkse using gams.com<mailto:sdirkse using gams.com>> wrote:

Roger,

Updating Xcode has the unfortunate side effect of wiping out the std header files from /usr/include.  The fix - once you know about it - is mercifully easy.  Here's my notes on the subject, recorded only yesterday so I don't waste more time the next time.

Xcode 10.3
Aug 2019: we updated to Xcode 10.3. First, we did the update through the App Store. Next, we opened Xcode in the App Store and said yes to “Install required additional components?” But that's not all! As admin, I did

sudo open /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg

FYI, I needed an additional step to manually patch /usr/include/sys/ucred.h but it's not likely you'll need that.

-Steve

On Wed, Aug 7, 2019 at 11:46 AM Koenker, Roger W <rkoenker using illinois.edu<mailto:rkoenker using illinois.edu>> wrote:
Dear All,

Just when I thought I had the plague of gfortran-9 under control, I made the tactical error
of allowing my mac mini to “upgrade” to macOS 10.14.6 which apparently also upgraded
Xcode to 10.3.  In consequence I’m having difficulty building my packages.  The current
symptom is:

/usr/local/clang7/bin/clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/clang7/include/c++/v1  -fPIC  -Wall -g -O2  -c mcmb.c -o mcmb.o
In file included from mcmb.c:11:
/usr/local/clang7/include/c++/v1/stdio.h:108:15: fatal error: 'stdio.h' file not found
#include_next <stdio.h>
              ^~~~~~~~~

My first thought was I should install Simon’s clang-7.0.0 and gfortran-6.1 packages
which I dutifully did.  The next thought was to update my ~/.R/Makevars file to:

CC=/usr/local/clang7/bin/clang
CXX=/usr/local/clang7/bin/clang++
LDFLAGS=-L/usr/local/clang7/lib
CPPFLAGS=-I/usr/local/clang7/include/c++/v1
FC=/usr/local/gfortran/bin/gfortran
FLIBS=-L/usr/local/gfortran/lib -lgfortran

Further googling has left me unenlightened…  oh, and I’m running
R version 3.6.1 (2019-07-05) -- "Action of the Toes"

Roger Koenker
r.koenker using ucl.ac.uk<mailto:r.koenker using ucl.ac.uk>
Department of Economics, UCL
London  WC1H 0AX.


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--
Steven Dirkse, Ph.D.
GAMS Development Corp.
office: 202.342.0180



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