On Tue, Apr 6, 2021 at 5:13 PM Bhamidipati, Vikram < [email protected]> wrote:
From configure.log and also my make check command I receive error message due to my Lapack libraries depending on older version of gfortran compared to petsc libraries. I am copy+pasting make check output:
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Running check examples to verify correct installation
Using PETSC_DIR=/home/vbhamidipati/petsc/petsc and PETSC_ARCH=arch-linux-c-debug
*******************Error detected during compile or link!*******************
See http://www.mcs.anl.gov/petsc/documentation/faq.html
/home/vbhamidipati/petsc/petsc/src/snes/tutorials ex19
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mpicc -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g3 -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -fstack-protector -fvisibility=hidden -g3 -I/home/vbhamidipati/petsc/petsc/include -I/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/include ex19.c -Wl,-rpath,/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/lib -L/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/lib -Wl,-rpath,/usr/lib64/mpich-3.2/lib -L/usr/lib64/mpich-3.2/lib -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib/gcc/x86_64-redhat-linux/8 -L/opt/rh/devtoolset-8/root/usr/lib/gcc/x86_64-redhat-linux/8 -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib64 -L/opt/rh/devtoolset-8/root/usr/lib64 -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib -L/opt/rh/devtoolset-8/root/usr/lib -lpetsc -llapack -lblas -lpthread -lm -lX11 -lstdc++ -ldl -lmpifort -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lstdc++ -ldl -o ex19
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
C/C++ example src/snes/tutorials/ex19 run successfully with 1 MPI process
C/C++ example src/snes/tutorials/ex19 run successfully with 2 MPI processes
*******************Error detected during compile or link!*******************
See http://www.mcs.anl.gov/petsc/documentation/faq.html
/home/vbhamidipati/petsc/petsc/src/snes/tutorials ex5f
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mpif90 -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -g -Wall -ffree-line-length-0 -Wno-unused-dummy-argument -g -I/home/vbhamidipati/petsc/petsc/include -I/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/include ex5f.F90 -Wl,-rpath,/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/lib -L/home/vbhamidipati/petsc/petsc/arch-linux-c-debug/lib -Wl,-rpath,/usr/lib64/mpich-3.2/lib -L/usr/lib64/mpich-3.2/lib -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib/gcc/x86_64-redhat-linux/8 -L/opt/rh/devtoolset-8/root/usr/lib/gcc/x86_64-redhat-linux/8 -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib64 -L/opt/rh/devtoolset-8/root/usr/lib64 -Wl,-rpath,/opt/rh/devtoolset-8/root/usr/lib -L/opt/rh/devtoolset-8/root/usr/lib -lpetsc -llapack -lblas -lpthread -lm -lX11 -lstdc++ -ldl -lmpifort -lmpi -lgfortran -lm -lgfortran -lm -lgcc_s -lquadmath -lstdc++ -ldl -o ex5f
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
/opt/rh/devtoolset-8/root/usr/libexec/gcc/x86_64-redhat-linux/8/ld: warning: libgfortran.so.3, needed by /lib/../lib64/liblapack.so, may conflict with libgfortran.so.5
Fortran example src/snes/tutorials/ex5f run successfully with 1 MPI process
Completed test examples
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Is this OK? Or should I replace Lapack libraries and rebuild petsc?
This should be fine. Thanks, Matt
Thanks,
Vikram
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Vikram Bhamidipati
Senior Research Engineer
Computational Material Integrity Section
Materials Engineering Department
Mechanical Engineering Division
Ph: (210) 522-2576
-- What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead. -- Norbert Wiener https://www.cse.buffalo.edu/~knepley/ <http://www.cse.buffalo.edu/~knepley/>