[R-SIG-Mac] Testing R 3.4.0 RC r72542

Simon Urbanek simon.urbanek at r-project.org
Wed Apr 19 15:44:34 CEST 2017

> On Apr 19, 2017, at 4:21 AM, Berend Hasselman <bhh at xs4all.nl> wrote:
> Most of the problems I mentioned yesterday with R 3.4.0 RC still exist.
> (see thread https://stat.ethz.ch/pipermail/r-sig-mac/2017-April/012287.html).
> There is now a libc++ in the R framework: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libc++.1.dylib
> 1.
> Rcpp was not updated and thus still links to /usr/local/clang4/lib/libc++.1.dylib and not to
> /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libc++.1.dylib

It has been updated, but so you're likely using a mirror that has not synced yet:

$ otool -L libs/Rcpp.so
	Rcpp.so (compatibility version 0.0.0, current version 0.0.0)
	/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libR.dylib (compatibility version 3.4.0, current version 3.4.0)
	/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1259.0.0)
	/Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libc++.1.dylib (compatibility version 1.0.0, current version 1.0.0)
	/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1226.10.1)

> 2.
> The private  package using C++ still links to Apple's libc++.1.dylib and not the one from clang4.
> Nor to the libc++.1.dylib in the R framework.
> It is however being built with clang4 using the method suggested by Simon.
> Output from otool -L ..:
> regts.so:
> 	regts.so (compatibility version 0.0.0, current version 0.0.0)
> 	/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libR.dylib (compatibility version 3.3.0, current version 3.3.3)
> 	/System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation (compatibility version 150.0.0, current version 1259.0.0)
> 	/usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version 120.1.0)
> 	/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1226.10.1)

Regular look up rules apply, so you probably want to add -L/usr/local/clang4/lib to your Makevars when you're setting CC/CXX to clang4. Another alternative is to symlink libc++/c++abi from clang into /usr/local/lib (then you may as well symlink clang/clang++ to /usr/local/bin and don't need any extra flags at all).

> 3.
> The problem with help pages in R.app I mentioned in my second mail still exist.
> (using [R.app GUI 1.70 (7334) x86_64-apple-darwin15.6.0]).
> For example after ?ls this message appears.
> starting httpd help server ... done
> 2017-04-19 10:14:31.505 R[3447:52508] App Transport Security has blocked a cleartext HTTP (http://) resource load since it is insecure. Temporary exceptions can be configured via your app's Info.plist file.
> And the window displaying the help is blank.
> Any request for help using ? of help() shows a blank window.

Are you building R.app yourself or is this from the binary? The CRAN binary should have this problem fixed since 2017/03/23 and I'm not seeing it on my test Sierra machine. However, I have only committed it into the SVN sources today so if you build from source the fix wouldn't show up until today.


> Berend
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