Hi,
The config.log that you sent this time does not seem to be related to the
previous one, but rather to a MOOSE build? And the version of PETSc is
totally different from the previous log, it is now PETSc 3.11.4.
In any event, the relevant configure output is:
configure:34458: checking for
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt//include/petscversion.h
> configure:34458: result: yes
> configure:34525: result: <<< Found PETSc 3.11.4 installation in
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt ... >>>
> configure:34535: checking whether we can compile a trivial PETSc program
> configure:34564: mpicxx -c -std=gnu++11
> -I/opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include
> -I/opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt//include
> -I/opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include
> -I/opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include conftest.cpp >&5
> In file included from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscsys.h:14:0,
> from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscbag.h:4,
> from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petsc.h:5,
> from conftest.cpp:144:
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscconf.h:85:36:
> error: expected '}' before '__attribute'
> #define PETSC_DEPRECATED_ENUM(why) __attribute((deprecated))
> ^
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscksp.h:430:76:
> note: in expansion of macro 'PETSC_DEPRECATED_ENUM'
> #define KSP_DIVERGED_PCSETUP_FAILED_DEPRECATED
> KSP_DIVERGED_PCSETUP_FAILED PETSC_DEPRECATED_ENUM("Use
> KSP_DIVERGED_PC_FAILED (since v3.11)")
>
> ^
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscksp.h:452:15:
> note: in expansion of macro 'KSP_DIVERGED_PCSETUP_FAILED_DEPRECATED'
> KSP_DIVERGED_PCSETUP_FAILED_DEPRECATED = -11,
> ^
> In file included from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscsnes.h:6:0,
> from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscts.h:7,
> from
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petsc.h:29,
> from conftest.cpp:144:
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscksp.h:452:55:
> error: expected unqualified-id before '=' token
> KSP_DIVERGED_PCSETUP_FAILED_DEPRECATED = -11,
> ^
> /opt/moose/petsc-3.11.4/mpich-3.3_gcc-9.2.0-opt/include/petscksp.h:454:52:
> error: expected declaration before '}' token
> KSP_CONVERGED_ITERATING = 0} KSPConvergedReason;
> ^
So there is a syntax error related to the __attribute keyword that appears
in one of the PETSc header files. This means that the compiler you are
using:
configure:5255: mpicc --version >&5
> gcc (Homebrew GCC 5.5.0_7) 5.5.0
is also different from the one in your previous email, and is apparently
too old to be able to compile the version of PETSc you are using. Note that
PETSc 3.11.4 is from March 2019 while GCC 5.5 is from 2017, so this could
explain the discrepancy. These types of errors are pretty common when
trying to build old versions of software from source on newer (looks like
you are using Ubuntu 18.04) machines, so I would recommend using
contemporary versions of all software.
--
John
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