My build is with xcode clang - not brew clang Satish On Thu, 9 Dec 2021, Mark Adams wrote:
Mpich seems to give the same error. I use clang 13.0. I think I get that from homebrew. Should I try something like: brew install llvm@12
I see:
(conda_env) 07:50 adams/fix_mat_ex5k= ~/Codes/petsc2$ brew info llvm llvm: stable 13.0.0 (bottled), HEAD [keg-only] Next-gen compiler infrastructure https://llvm.org/ Not installed From: https://github.com/Homebrew/homebrew-core/blob/HEAD/Formula/llvm.rb License: Apache-2.0 with LLVM-exception ==> Dependencies Build: cmake ✔, swig ✘ Required: [email protected] ✘ ==> Options --HEAD Install HEAD version ==> Caveats To use the bundled libc++ please add the following LDFLAGS: LDFLAGS="-L/usr/local/opt/llvm/lib -Wl,-rpath,/usr/local/opt/llvm/lib"
llvm is keg-only, which means it was not symlinked into /usr/local, because macOS already provides this software and installing another version in parallel can cause all kinds of trouble.
==> Analytics install: 32,204 (30 days), 98,525 (90 days), 299,560 (365 days) install-on-request: 17,978 (30 days), 62,171 (90 days), 212,999 (365 days) build-error: 2,696 (30 days)
On Wed, Dec 8, 2021 at 1:30 PM Satish Balay <[email protected]> wrote:
This build goes through fine for me. [with petsc/main]
xpro:petsc balay$ sw_vers ProductName: Mac OS X ProductVersion: 10.15.7 BuildVersion: 19H1519 xpro:petsc balay$ clang --version Apple clang version 12.0.0 (clang-1200.0.32.2) <snip> xpro:petsc balay$ ./configure --download-mpich --with-fc=0 COPTFLAGS="-g -O" CXXOPTFLAGS="-g -O" --with-fortran-bindings=0 --download-kokkos=1 --download-kokkos-kernels=1 --with-kokkos-kernels-tpl=0 --with-zlib=1 --with-x=0
Satish
On Wed, 8 Dec 2021, Jacob Faibussowitsch wrote:
And your algorithm looks idempotent to me....
Believe me, I was sufficiently shocked when everything magically started working the 3rd time around :)
Best regards,
Jacob Faibussowitsch (Jacob Fai - booss - oh - vitch)
On Dec 8, 2021, at 09:29, Mark Adams <[email protected]> wrote:
Thanks, And your algorithm looks idempotent to me....
On Wed, Dec 8, 2021 at 9:13 AM Jacob Faibussowitsch < [email protected] <mailto:[email protected]>> wrote: So I had similar issues back when I originally wrote the clang linter — on Big Sur. The TL;DR for me was that Catalina originally shipped with broken cmath headers, something future updates wouldn’t necessarily fix. The only way to fix it was to:
1. Reinstall CLT 2. Reinstall/install Xcode 3. Repeat the above until it was fixed
Now you may have an unrelated issue, but my error messages (e.g. about missing “signbit”, “std::less_than”, etc in global namespace) were very very similar. See discussions here:
1. https://gitlab.com/petsc/petsc/-/merge_requests/3773 < https://gitlab.com/petsc/petsc/-/merge_requests/3773> 2. https://stackoverflow.com/questions/58628377/catalina-c-using-cmath-headers-... < https://stackoverflow.com/questions/58628377/catalina-c-using-cmath-headers-...
3. https://stackoverflow.com/questions/58313047/cannot-compile-r-packages-with-... < https://stackoverflow.com/questions/58313047/cannot-compile-r-packages-with-...
If these help then you’re lucky I never clean out my “misc” bookmarks
folder :)
Best regards,
Jacob Faibussowitsch (Jacob Fai - booss - oh - vitch)
On Dec 8, 2021, at 09:06, Mark Adams <[email protected] <mailto:
[email protected]>> wrote:
Monterey. And my serial, optimized build works but it seems to use the same
compiler.
I am testing the parallel build again with debug turned off.
On Wed, Dec 8, 2021 at 9:04 AM Jacob Faibussowitsch < [email protected] <mailto:[email protected]>> wrote: You aren’t by chance on Catalina are you?
Best regards,
Jacob Faibussowitsch (Jacob Fai - booss - oh - vitch)
On Dec 8, 2021, at 08:49, Mark Adams <[email protected] <mailto: [email protected]>> wrote:
I am failing on OSX with openmpi. Kokkos is failing to build. I seem to be using:
(conda_env) 08:46 1 adams/fix_mat_ex5k *= ~/Codes/petsc2$ /usr/local/Cellar/open-mpi/4.1.1_2/bin/mpicxx --version Apple clang version 13.0.0 (clang-1300.0.29.3) Target: x86_64-apple-darwin21.1.0 Thread model: posix InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
Any ideas? Thanks, Mark <configure.log>