Additional information from Johannes Ring (fenics dev) on
https://groups.google.com/d/topic/fenics-support/mfJdWYwq0-w/discussion
The problem is that the path to petsc4py is included in
/usr/share/dolfin/cmake/DOLFINConfig.cmake and
/usr/share/dolfin/cmake/DOLFINTargets.cmake, while it should only
have been included in /usr/share/dolfin/cmake/DOLFINPython27.cmake
and /usr/share/dolfin/cmake/DOLFINPython36.cmake.
The quick fix would be to either install python-petsc4py (the
petsc4py include files are the same for python2 and python3) or to
remove the path to petsc4py from DOLFINConfig.cmake and
DOLFINTargets.cmake.
These recommendations solve the trouble (even if other errors are still
raised in the overly-simplified script).
--- /tmp/DOLFINConfig.cmake 2018-04-13 16:27:57.189842279 +0200
+++ /usr/share/dolfin/cmake/DOLFINConfig.cmake 2018-04-13 16:28:29.169796349 +0200
@@ -40,7 +40,7 @@
set(DOLFIN_INCLUDE_DIRS "/usr/include")
# Third party include directories
-set(DOLFIN_3RD_PARTY_INCLUDE_DIRS "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/python2.7/dist-packages/petsc4py/include;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include;/usr/lib/petscdir/petsc3.8/x86_64-linux-gnu-real/include;/usr/include/superlu-dist;/usr/include/hypre;/usr/include/suitesparse;/usr/include/superlu;/usr/include/scotch;/usr/include/hdf5/openmpi;")
+set(DOLFIN_3RD_PARTY_INCLUDE_DIRS "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include;/usr/lib/petscdir/petsc3.8/x86_64-linux-gnu-real/include;/usr/include/superlu-dist;/usr/include/hypre;/usr/include/suitesparse;/usr/include/superlu;/usr/include/scotch;/usr/include/hdf5/openmpi;")
# Python variables
if ("ON" AND "TRUE")
--- /tmp/DOLFINTargets.cmake 2018-04-13 16:40:19.260234464 +0200
+++ /usr/share/dolfin/cmake/DOLFINTargets.cmake 2018-04-13 16:37:52.096803585 +0200
@@ -55,9 +55,9 @@
set_target_properties(dolfin PROPERTIES
INTERFACE_COMPILE_DEFINITIONS "NDEBUG;DOLFIN_SIZE_T=8;DOLFIN_LA_INDEX_SIZE=4;HAS_HDF5;_FORTIFY_SOURCE=2;HAS_SLEPC;HAS_PETSC;HAS_PETSC4PY;HAS_UMFPACK;HAS_CHOLMOD;HAS_SCOTCH;HAS_ZLIB;HAS_MPI;DOLFIN_VERSION=\"2017.2.0\""
- INTERFACE_INCLUDE_DIRECTORIES "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/python2.7/dist-packages/petsc4py/include;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include"
+ INTERFACE_INCLUDE_DIRECTORIES "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include"
INTERFACE_LINK_LIBRARIES "Boost::boost;Boost::timer;/usr/lib/x86_64-linux-gnu/hdf5/openmpi/libhdf5.so;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so;SLEPC::slepc;PETSC::petsc;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so"
- INTERFACE_SYSTEM_INCLUDE_DIRECTORIES "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/python2.7/dist-packages/petsc4py/include;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include"
+ INTERFACE_SYSTEM_INCLUDE_DIRECTORIES "/usr/include;/usr/include/eigen3;/usr/include/hdf5/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent;/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi/opal/mca/event/libevent2022/libevent/include;/usr/lib/x86_64-linux-gnu/openmpi/include"
)
if(CMAKE_VERSION VERSION_LESS 2.8.12)
--
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