[Openmp-dev] cmake 3.7.0-rc1 breaks stage2 bootstrap in openmp on 10.11 with Xcode 8

[Jack Howarth via Openmp-dev]

On Sat, Oct 8, 2016 at 1:33 PM, Jack Howarth
<howarth.mailing.lists at gmail.com> wrote:
> The new cmake 3.7.0-rc1 release produces a stage2 bootstrap failure in
> openmp project build on OS X 10.11 under Xcode 8....
>
> In file included from
> /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/kmp_alloc.c:16:
> In file included from
> /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/kmp.h:98:
> /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/kmp_lock.h:26:10:
> fatal error: 'atomic' file not found
> #include <atomic>
>          ^
>

Appending -v to see the header search paths emitted from the compiler
shows the following....

compiling without -sysroot (which is the behavior for cmake 3.6.2 and
earlier)....

clang -cc1 version 4.0.0 based upon LLVM 4.0.0 default target
x86_64-apple-darwin15.6.0
ignoring nonexistent directory
"/sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../include/c++/v1"
ignoring nonexistent directory "/usr/local/include"
#include "..." search starts here:
#include <...> search starts here:
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/i18n
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/include/45
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/thirdparty/ittnotify
 /sw/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include/c++/v1
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../lib/clang/4.0.0/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.

compiling with -isysroot
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk
as cmake 3.7.0-rc1 does...

lang -cc1 version 4.0.0 based upon LLVM 4.0.0 default target
x86_64-apple-darwin15.6.0
ignoring nonexistent directory
"/sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../include/c++/v1"
ignoring nonexistent directory
"/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include/c++/v1"
ignoring nonexistent directory
"/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/usr/local/include"
ignoring nonexistent directory
"/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/Library/Frameworks"
#include "..." search starts here:
#include <...> search starts here:
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/i18n
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/include/45
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/thirdparty/ittnotify
 /sw/include
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../lib/clang/4.0.0/include
 /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/usr/include
 /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/System/Library/Frameworks
(framework directory)
End of search list.

compiling with -isysroot / instead....

clang -cc1 version 4.0.0 based upon LLVM 4.0.0 default target
x86_64-apple-darwin15.6.0
ignoring nonexistent directory
"/sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../include/c++/v1"
ignoring nonexistent directory "/usr/local/include"
#include "..." search starts here:
#include <...> search starts here:
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/include
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/i18n
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/include/45
 /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/thirdparty/ittnotify
 /sw/include
 /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include/c++/v1
 /sw/src/fink.build/llvm40-4.0.0-1/build/stage1/bin/../lib/clang/4.0.0/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.

So for both no usage of -sysroot or '-sysroot /', the search path of
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include/c++/v1
is appended for the compiler but the case of  '-isysroot
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk',
the compiler attempts to use the non-existent search path of
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/include/c++/v1.

> This appears to be due to the new cmake 3.7.0-rc1 resulting in
> -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk
> being used in the compilation of openmp....
>
> cd /sw/src/fink.build/llvm40-4.0.0-1/build/stage2/projects/openmp/runtime/src
> && /sw/src/fink.build/llvm40-4.0.0-1/opt-bin/cc-st1-clang
> -D__STDC_CONSTANT_MACROS -D__STDC_FORMAT_MACROS -D__STDC_LIMIT_MACROS
> -Domp_EXPORTS -I/sw/src/fink.build/llvm40-4.0.0-1/build/stage2/projects/openmp/runtime/src
> -I/sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src
> -I/sw/src/fink.build/llvm40-4.0.0-1/build/stage2/include
> -I/sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/include
> -I/sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/i18n
> -I/sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/include/45
> -I/sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/thirdparty/ittnotify
>  -Wall -W -Wno-unused-parameter -Wwrite-strings
> -Wmissing-field-initializers -pedantic -Wno-long-long
> -Wcovered-switch-default -Wdelete-non-virtual-dtor -Werror=date-time
> -O3 -DNDEBUG -arch x86_64 -arch i386 -isysroot
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.12.sdk
> -fPIC   -D _GNU_SOURCE -D _REENTRANT -I/sw/include -std=c++11
> -fno-exceptions -Wno-sign-compare -Wno-unused-function
> -Wno-unused-local-typedef -Wno-unused-value -Wno-unused-variable
> -Wno-switch -Wno-covered-switch-default -Wno-deprecated-register
> -Wno-gnu-anonymous-struct -Wno-unknown-pragmas
> -Wno-missing-field-initializers -Wno-missing-braces -Wno-comment
> -Wno-self-assign -Wno-vla-extension -Wno-format-pedantic -x c++ -o
> CMakeFiles/omp.dir/kmp_alloc.c.o   -c
> /sw/src/fink.build/llvm40-4.0.0-1/llvm-4.0.0.src/projects/openmp/runtime/src/kmp_alloc.c
>
> The problem doesn't exist under cmake 3.6.2 because the openmp build
> doesn't append  -isysroot in that case.
>               Jack
> ps Note this seems to be related to using any SDK for -sysroot as
> substituting...
>
> -isysroot /Volumes/Xcode/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.11.sdk
>
> from the Xcode 7.3.1 release also fails but substituting...
>
> -isysroot /
>
> or omitting -sysroot entirely allows the compilation to succeed. So it
> seems that the openmp code doesn't like being compiled against SDKs
> rather than / on darwin.