[petsc-dev] Configure --download-eigen hangs

[Jacob Faibussowitsch]

> the configure.log sent didn't list the build command used for eigen.
Yeah it never got there. The log is the “complete” log from configure. After a while I always just ctrl-c the configure. I will try building from conf.eigen and see if it goes through.

Best regards,

Jacob Faibussowitsch
(Jacob Fai - booss - oh - vitch)
Cell: (312) 694-3391

> On Mar 24, 2020, at 1:27 PM, Satish Balay <balay at mcs.anl.gov> wrote:
> 
> the configure.log sent didn't list the build command used for eigen.
> 
>>>> 
> Have to rebuild EIGEN, /Users/jacobfaibussowitsch/NoSync/petsc/64-arch-darwin-c-debug/externalpackages/git.eigen/eigen.petscconf != /Users/jacobfaibussowitsch/NoSync/petsc/64-arch-darwin-c-debug/lib/petsc/conf/pkg.conf.eigen
> <<<<
> 
> You can check the contents of /Users/jacobfaibussowitsch/NoSync/petsc/64-arch-darwin-c-debug/lib/petsc/conf/pkg.conf.eigen - use it to manually build eigen and see if the problem persists.
> 
> In my build - I see: [invoked from /Users/balay/petsc/64-arch-darwin-c-debug/externalpackages/git.eigen/petsc-build]
> 
> Executing: /usr/local/bin/cmake .. -DCMAKE_INSTALL_PREFIX=/Users/balay/petsc/64-arch-darwin-c-debug -DCMAKE_VERBOSE_MAKEFILE=1 -DCMAKE_C_COMPILER="/Users/balay/petsc/64-arch-darwin-c-debug/bin/mpicc" -DCMAKE_AR=/usr/bin/ar -DCMAKE_RANLIB=/usr/bin/ranlib -DCMAKE_C_FLAGS:STRING="-fstack-protector -fno-stack-check -Qunused-arguments -g3" -DCMAKE_C_FLAGS_DEBUG:STRING="-fstack-protector -fno-stack-check -Qunused-arguments -g3" -DCMAKE_C_FLAGS_RELEASE:STRING="-fstack-protector -fno-stack-check -Qunused-arguments -g3" -DCMAKE_CXX_COMPILER="/Users/balay/petsc/64-arch-darwin-c-debug/bin/mpicxx" -DCMAKE_CXX_FLAGS:STRING="-fstack-protector -fno-stack-check -g" -DCMAKE_CXX_FLAGS_DEBUG:STRING="-fstack-protector -fno-stack-check -g" -DCMAKE_CXX_FLAGS_RELEASE:STRING="-fstack-protector -fno-stack-check -g" -DCMAKE_Fortran_COMPILER="/Users/balay/petsc/64-arch-darwin-c-debug/bin/mpif90" -DCMAKE_Fortran_FLAGS:STRING="-ffree-line-length-0 -g" -DCMAKE_Fortran_FLAGS_DEBUG:STRING="-ffree-line-lengt
> h-0 -g" -DCMAKE_Fortran_FLAGS_RELEASE:STRING="-ffree-line-length-0 -g" -DBUILD_SHARED_LIBS=on -DENABLE_OPENMP=OFF
> 
> Satish
> 
> On Tue, 24 Mar 2020, Pierre Jolivet wrote:
> 
>> FWIW, I’ve had the same issue as Jacob for quite a while and I’ve since been using brew install eigen to bypass this.
>> I’ve just checked again, and look at one of the process spawned during ./configure. That doesn’t look alright to me.
>> 
>> Thanks,
>> Pierre
>> 
>> 
>> 
>>> On 24 Mar 2020, at 6:40 PM, Satish Balay via petsc-dev <petsc-dev at mcs.anl.gov> wrote:
>>> 
>>> I just attempted a build on osx - and didn't see any such hang. I'm not sure why your build is hanging..
>>> 
>>> balay at kpro petsc % ./configure --download-eigen --download-pragmatic --download-metis --download-mpich
>>> 
>>> Satish
>>> 
>>> On Tue, 24 Mar 2020, Jacob Faibussowitsch wrote:
>>> 
>>>> Hello all,
>>>> 
>>>> Trying to install pragmatic using petsc, which requires Eigen package. I am installing these packages using arch/lib/petsc/conf/reconfigure —download-eigen —download-pragmatic. This is as far as it gets:
>>>> 
>>>> /reconfigure-64-arch-darwin-c-debug.py --download-eigen
>>>> ===============================================================================
>>>>            Configuring PETSc to compile on your system
>>>> ===============================================================================
>>>> ===============================================================================
>>>> Trying to download git://https://gitlab.com/libeigen/eigen for EIGEN                     ===============================================================================
>>>> ===============================================================================
>>>> Configuring EIGEN with cmake, this may take several minutes                                   ===============================================================================
>>>> 
>>>> I have let this run for ~30 minute periods 3 times and it never progresses. I think that it does finish configure, but never progresses to the make stage.
>>>> 
>>>> I have checked htop (brew version of top) and the only relevant processes running are bash with ~5% CPU. This is less robust but on my setup the window bar (where the close, minimize, etc buttons are) of the terminal window also reports the currently running process and this also only shows bash. For reference when configure is running normally, the top bar switches between clang, ld, expr, cmake, g++, etc. System resources used usually shoots up to ~40-90% as it gets into the different configures and makes for each package.
>>>> 
>>>> I have tried this on 2 different petsc configurations; --with-64-bit-indices=0/1, since this originally didn’t work with 64 bit indices so I figured that may be the issue. I have also cleared my ccache completely using ccache -c -C and rerun both configures.
>>>> 
>>>> I have attached both configure.logs, note configure.log —> —with-64-bit-indices=1, configure.log.bkp —> —with-64-bit-indices=0
>>>> 
>>>> 
>>>> Best regards,
>>>> 
>>>> Jacob Faibussowitsch
>>>> (Jacob Fai - booss - oh - vitch)
>>>> Cell: (312) 694-3391
>>>> 
>> 
>> 

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