Marc I did resolve the above issue as there was some problems with permissions while installing PETSC and I was installing it with root in /usr/lib/ directory which I installed without root privileges in /home/username/ directory and I did manage to compile the deal.II library with cmake.Anyways I am grateful to your quick response on my query .
Regards Pushkar On Fri, Nov 27, 2020 at 8:32 AM Marc Fehling <mafehl...@gmail.com> wrote: > Pushkar, > > would you check the `detailed.log` file in the build folder in which you > configured deal.II with cmake and find the configuration details for PETSc. > > Does the PETSc folder specified in the log file contain the requested > header files? The header files should be located in an include folder, > i.e., /path/to/petsc/include > > Best, > Marc > > On Thursday, November 26, 2020 at 7:47:50 PM UTC-7 pushkar...@gmail.com > wrote: > >> Yes I did follow the above instructions but I am still facing the same >> issue . >> >> On Fri, Nov 27, 2020 at 3:53 AM Marc Fehling <mafe...@gmail.com> wrote: >> >>> Hi Pushkar! >>> >>> It appears the PETSc has been found during the configuration of deal.II >>> with cmake, but you can not find the header files of the PETSc libraries >>> during compilation. >>> >>> Did you follow all instructions on how to interface deal.II to PETSc on >>> this particular guide >>> <https://www.dealii.org/9.0.0/external-libs/petsc.html>? >>> >>> Marc >>> On Thursday, November 26, 2020 at 5:24:58 AM UTC-7 pushkar...@gmail.com >>> wrote: >>> >>>> Dear deal.II community, >>>> >>>> I am installing deal.II 9.0.0 as I wish to run PRIMS-PF on it wherein >>>> during the process I ran into certain issues as : >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_vector.h:28, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/dofs/dof_accessor_get.cc:21: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_vector_base.h:32:12: >>>> fatal error: petscvec.h: No such file or directory >>>> 32 | # include <petscvec.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** [source/dofs/CMakeFiles/obj_dofs_debug.dir/build.make:160: >>>> source/dofs/CMakeFiles/obj_dofs_debug.dir/dof_accessor_get.cc.o] Error 1 >>>> make[1]: *** [CMakeFiles/Makefile2:3588: >>>> source/dofs/CMakeFiles/obj_dofs_debug.dir/all] Error 2 >>>> make[1]: *** Waiting for unfinished jobs.... >>>> [ 48%] Building CXX object >>>> source/base/CMakeFiles/obj_base_debug.dir/multithread_info.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_vector.h:28, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/algorithms/operator.cc:30: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_vector_base.h:32:12: >>>> fatal error: petscvec.h: No such file or directory >>>> 32 | # include <petscvec.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** >>>> [source/algorithms/CMakeFiles/obj_algorithms_debug.dir/build.make:82: >>>> source/algorithms/CMakeFiles/obj_algorithms_debug.dir/operator.cc.o] Error >>>> 1 >>>> make[1]: *** [CMakeFiles/Makefile2:4209: >>>> source/algorithms/CMakeFiles/obj_algorithms_debug.dir/all] Error 2 >>>> [ 48%] Building CXX object >>>> source/base/CMakeFiles/obj_base_debug.dir/named_selection.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_vector.h:28, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_block_vector.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/multigrid/mg_base.cc:21: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_vector_base.h:32:12: >>>> fatal error: petscvec.h: No such file or directory >>>> 32 | # include <petscvec.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** >>>> [source/multigrid/CMakeFiles/obj_multigrid_debug.dir/build.make:82: >>>> source/multigrid/CMakeFiles/obj_multigrid_debug.dir/mg_base.cc.o] Error 1 >>>> make[1]: *** [CMakeFiles/Makefile2:4047: >>>> source/multigrid/CMakeFiles/obj_multigrid_debug.dir/all] Error 2 >>>> [ 48%] Building CXX object >>>> source/distributed/CMakeFiles/obj_distributed_debug.dir/solution_transfer.cc.o >>>> /home/pushkar/dealii-9.0.0/source/base/mpi.cc:38:12: fatal error: >>>> petscsys.h: No such file or directory >>>> 38 | # include <petscsys.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** [source/base/CMakeFiles/obj_base_debug.dir/build.make:368: >>>> source/base/CMakeFiles/obj_base_debug.dir/mpi.cc.o] Error 1 >>>> make[2]: *** Waiting for unfinished jobs.... >>>> [ 48%] Building CXX object >>>> source/distributed/CMakeFiles/obj_distributed_debug.dir/tria.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_vector.h:28, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_block_vector.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/lac/block_matrix_array.cc:23: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_vector_base.h:32:12: >>>> fatal error: petscvec.h: No such file or directory >>>> 32 | # include <petscvec.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** [source/lac/CMakeFiles/obj_lac_debug.dir/build.make:82: >>>> source/lac/CMakeFiles/obj_lac_debug.dir/block_matrix_array.cc.o] Error 1 >>>> make[1]: *** [CMakeFiles/Makefile2:3615: >>>> source/lac/CMakeFiles/obj_lac_debug.dir/all] Error 2 >>>> [ 48%] Building CXX object >>>> source/distributed/CMakeFiles/obj_distributed_debug.dir/tria_base.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/hp/fe_values.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/numerics/data_out_dof_data.h:30, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/numerics/data_out.h:22, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/numerics/data_out.cc:17: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/fe/fe_values.h:48:12: fatal >>>> error: petsc.h: No such file or directory >>>> 48 | # include <petsc.h> >>>> | ^~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** >>>> [source/numerics/CMakeFiles/obj_numerics_debug.dir/build.make:82: >>>> source/numerics/CMakeFiles/obj_numerics_debug.dir/data_out.cc.o] Error 1 >>>> make[1]: *** [CMakeFiles/Makefile2:3399: >>>> source/numerics/CMakeFiles/obj_numerics_debug.dir/all] Error 2 >>>> [ 48%] Building CXX object >>>> source/distributed/CMakeFiles/obj_distributed_debug.dir/shared_tria.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_parallel_vector.h:28, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/distributed/solution_transfer.cc:25: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/lac/petsc_vector_base.h:32:12: >>>> fatal error: petscvec.h: No such file or directory >>>> 32 | # include <petscvec.h> >>>> | ^~~~~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** >>>> [source/distributed/CMakeFiles/obj_distributed_debug.dir/build.make:95: >>>> source/distributed/CMakeFiles/obj_distributed_debug.dir/solution_transfer.cc.o] >>>> Error 1 >>>> make[2]: *** Waiting for unfinished jobs.... >>>> [ 50%] Building CXX object >>>> source/matrix_free/CMakeFiles/obj_matrix_free_debug.dir/mapping_info.cc.o >>>> In file included from /home/pushkar/dealii-9.0.0/source/fe/fe_abf.cc:28: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/fe/fe_values.h:48:12: fatal >>>> error: petsc.h: No such file or directory >>>> 48 | # include <petsc.h> >>>> | ^~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** [source/fe/CMakeFiles/obj_fe_debug.dir/build.make:108: >>>> source/fe/CMakeFiles/obj_fe_debug.dir/fe_abf.cc.o] Error 1 >>>> make[1]: *** [CMakeFiles/Makefile2:3480: >>>> source/fe/CMakeFiles/obj_fe_debug.dir/all] Error 2 >>>> [ 50%] Building CXX object >>>> source/matrix_free/CMakeFiles/obj_matrix_free_debug.dir/matrix_free.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/matrix_free/mapping_info.templates.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/matrix_free/mapping_info.cc:17: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/fe/fe_values.h:48:12: fatal >>>> error: petsc.h: No such file or directory >>>> 48 | # include <petsc.h> >>>> | ^~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** >>>> [source/matrix_free/CMakeFiles/obj_matrix_free_debug.dir/build.make:95: >>>> source/matrix_free/CMakeFiles/obj_matrix_free_debug.dir/mapping_info.cc.o] >>>> Error 1 >>>> make[2]: *** Waiting for unfinished jobs.... >>>> [ 50%] Building CXX object >>>> source/grid/CMakeFiles/obj_grid_debug.dir/grid_generator.cc.o >>>> [ 50%] Building CXX object >>>> source/grid/CMakeFiles/obj_grid_debug.dir/grid_in.cc.o >>>> make[1]: *** [CMakeFiles/Makefile2:3696: >>>> source/base/CMakeFiles/obj_base_debug.dir/all] Error 2 >>>> [ 50%] Building CXX object >>>> source/grid/CMakeFiles/obj_grid_debug.dir/grid_out.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/hp/fe_values.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/numerics/data_out_dof_data.h:30, >>>> from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/numerics/data_out.h:22, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/grid/grid_out.cc:27: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/fe/fe_values.h:48:12: fatal >>>> error: petsc.h: No such file or directory >>>> 48 | # include <petsc.h> >>>> | ^~~~~~~~~ >>>> compilation terminated. >>>> make[2]: *** [source/grid/CMakeFiles/obj_grid_debug.dir/build.make:121: >>>> source/grid/CMakeFiles/obj_grid_debug.dir/grid_out.cc.o] Error 1 >>>> make[2]: *** Waiting for unfinished jobs.... >>>> [ 50%] Building CXX object >>>> source/hp/CMakeFiles/obj_hp_debug.dir/dof_level.cc.o >>>> [ 50%] Building CXX object >>>> source/hp/CMakeFiles/obj_hp_debug.dir/fe_collection.cc.o >>>> [ 50%] Built target obj_gmsh_debug >>>> [ 50%] Building CXX object >>>> source/hp/CMakeFiles/obj_hp_debug.dir/fe_values.cc.o >>>> [ 51%] Building CXX object >>>> source/hp/CMakeFiles/obj_hp_debug.dir/mapping_collection.cc.o >>>> [ 51%] Building CXX object >>>> source/hp/CMakeFiles/obj_hp_debug.dir/dof_handler.cc.o >>>> In file included from >>>> /home/pushkar/dealii-9.0.0/include/deal.II/hp/fe_values.h:24, >>>> from >>>> /home/pushkar/dealii-9.0.0/source/hp/fe_values.cc:16: >>>> /home/pushkar/dealii-9.0.0/include/deal.II/fe/fe_values.h:48:12: fatal >>>> error: petsc.h: No such file or directory >>>> 48 | # include <petsc.h> >>>> | ^~~~~~~~~ >>>> compilation terminated. >>>> The above out isnt the complete output but only the eror part in the >>>> output and I eventually ended with make error . Moreover,I have compiled >>>> deal.II with Trilinos ,Petsc ,p4est,cuda and mpi flags "on". Any header in >>>> this regard is appreciated . >>>> >>>> Regards >>>> Pushkar >>>> >>> -- >>> The deal.II project is located at http://www.dealii.org/ >>> For mailing list/forum options, see >>> https://groups.google.com/d/forum/dealii?hl=en >>> --- >>> You received this message because you are subscribed to the Google >>> Groups "deal.II User Group" group. >>> To unsubscribe from this group and stop receiving emails from it, send >>> an email to dealii+un...@googlegroups.com. >>> To view this discussion on the web visit >>> https://groups.google.com/d/msgid/dealii/2e2fb11a-c1b9-4ef6-9158-9373f134a40cn%40googlegroups.com >>> <https://groups.google.com/d/msgid/dealii/2e2fb11a-c1b9-4ef6-9158-9373f134a40cn%40googlegroups.com?utm_medium=email&utm_source=footer> >>> . >>> >> -- > The deal.II project is located at http://www.dealii.org/ > For mailing list/forum options, see > https://groups.google.com/d/forum/dealii?hl=en > --- > You received this message because you are subscribed to the Google Groups > "deal.II User Group" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to dealii+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/dealii/66f6b7a8-30d4-4aac-8482-3e1f00b3f303n%40googlegroups.com > <https://groups.google.com/d/msgid/dealii/66f6b7a8-30d4-4aac-8482-3e1f00b3f303n%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- The deal.II project is located at http://www.dealii.org/ For mailing list/forum options, see https://groups.google.com/d/forum/dealii?hl=en --- You received this message because you are subscribed to the Google Groups "deal.II User Group" group. 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