September 2015 - petsc-dev - mailman3.cels.anl.gov

Re: [petsc-dev] Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Satish Balay 28 Sep '15

28 Sep '15

Its best to install different versions of software collection in different prefix locations - to avoid such conflicts. /home/chaffra/Projects/FEniCS/v1 /home/chaffra/Projects/FEniCS/v2 or some other naming convention... Satish On Mon, 28 Sep 2015, Chaffra Affouda wrote: > OK, after removing everything (mumps+suitesparses files) in include folder as > suggested by Satish's response it finally builds mumps. There must have been > some conflicting mumps files in the include folder. > > Thanks, > Chaffra > > On 09/28/2015 10:11 AM, Satish Balay wrote: > > > Configure Options: --configModules=PETSc.Configure > > > --optionsModule=config.compilerOptions > > > --prefix=/home/chaffra/Projects/FEniCS COPTFLAGS=-O2 --with-debugging=1 > > > --with-shared-libraries=1 --with-clanguage=cxx --with-c-support=1 > > > --with-pthreadclasses=1 --with-openmp=1 --download-suitesparse=1 > > > --download-hypre=1 --download-mumps=1 --download-scalapack=1 > > > --download-blacs=1 --download-ptscotch=1 --download-scotch=1 > > > --download-metis=1 --download-parmetis=1 --download-petsc4py=1 > > > --download-mpi4py=1 > > > > What do you have for: > > > > ls /home/chaffra/Projects/FEniCS/include > > > > > > Also suggest not using: > > > > --with-clanguage=cxx --with-c-support=1 --with-pthreadclasses=1 > > --with-openmp=1 > > > > And there is no more option '--download-blacs=1' > > > > Satish > > > > > > On Mon, 28 Sep 2015, Chaffra Affouda wrote: > > > > > Hi Barry, > > > > > > I've erased everything under petsc, clone from git but mumps still won't > > > build. Attached is my configure.log. > > > > > > Thanks, > > > Chaffra > > > > > > On 09/25/2015 04:51 PM, Barry Smith wrote: > > > > Cannot explain this. Try deleting the entire PETSc directory and > > > > running > > > > again with --download-mumps send configure.log if it fails > > > > > > > > Barry > > > > > > > > > On Sep 25, 2015, at 3:29 PM, Chaffra Affouda<chaffra(a)gmail.com> > > > > > wrote: > > > > > > > > > > Hi, > > > > > > > > > > I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is > > > > > mumps broken here? I am using ubuntu trusty. > > > > > > > > > > make[1]: Leaving directory > > > > > `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: > > > > > In function ‘mumps_init_file_name’: > > > > > mumps_io_basic.c:579:14: warning: assignment discards ‘const’ > > > > > qualifier > > > > > from pointer target type [enabled by default] > > > > > tmp_dir=MUMPS_OOC_DEFAULT_DIR; > > > > > ^ > > > > > cmumps_ooc.F:159.42: > > > > > > > > > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > > > > > 1 > > > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > > > structure > > > > > cmumps_ooc.F:525.36: > > > > > > > > > > DO I1=1,id%OOC_NB_FILE_TYPE > > > > > 1 > > > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > > > structure > > > > > cmumps_ooc.F:540.12: > > > > > > > > > > ENDDO > > > > > 1 > > > > > Error: Expecting END IF statement at (1) > > > > > cmumps_ooc.F:562.31: > > > > > > > > > > IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) > > > > > 1 > > > > > Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' > > > > > structure > > > > > cmumps_ooc.F:677.42: > > > > > > > > > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > > > > > 1 > > > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > > > structure > > > > > make[3]: *** [cmumps_ooc.o] Error 1 > > > > > make[2]: *** [c] Error 2 > > > > > make[1]: *** [mumps_lib] Error 2 > > > > > make: *** [c] Error 2 > > > > > ******************************************************************************* > > > > > > > > > >

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Re: [petsc-dev] Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Chaffra Affouda 28 Sep '15

28 Sep '15

OK, after removing everything (mumps+suitesparses files) in include folder as suggested by Satish's response it finally builds mumps. There must have been some conflicting mumps files in the include folder. Thanks, Chaffra On 09/28/2015 10:11 AM, Satish Balay wrote: >> Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --prefix=/home/chaffra/Projects/FEniCS COPTFLAGS=-O2 --with-debugging=1 --with-shared-libraries=1 --with-clanguage=cxx --with-c-support=1 --with-pthreadclasses=1 --with-openmp=1 --download-suitesparse=1 --download-hypre=1 --download-mumps=1 --download-scalapack=1 --download-blacs=1 --download-ptscotch=1 --download-scotch=1 --download-metis=1 --download-parmetis=1 --download-petsc4py=1 --download-mpi4py=1 > > What do you have for: > > ls /home/chaffra/Projects/FEniCS/include > > > Also suggest not using: > > --with-clanguage=cxx --with-c-support=1 --with-pthreadclasses=1 --with-openmp=1 > > And there is no more option '--download-blacs=1' > > Satish > > > On Mon, 28 Sep 2015, Chaffra Affouda wrote: > >> Hi Barry, >> >> I've erased everything under petsc, clone from git but mumps still won't >> build. Attached is my configure.log. >> >> Thanks, >> Chaffra >> >> On 09/25/2015 04:51 PM, Barry Smith wrote: >>> Cannot explain this. Try deleting the entire PETSc directory and running >>> again with --download-mumps send configure.log if it fails >>> >>> Barry >>> >>>> On Sep 25, 2015, at 3:29 PM, Chaffra Affouda<chaffra(a)gmail.com> wrote: >>>> >>>> Hi, >>>> >>>> I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is >>>> mumps broken here? I am using ubuntu trusty. >>>> >>>> make[1]: Leaving directory >>>> `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: >>>> In function ‘mumps_init_file_name’: >>>> mumps_io_basic.c:579:14: warning: assignment discards ‘const’ qualifier >>>> from pointer target type [enabled by default] >>>> tmp_dir=MUMPS_OOC_DEFAULT_DIR; >>>> ^ >>>> cmumps_ooc.F:159.42: >>>> >>>> OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE >>>> 1 >>>> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' >>>> structure >>>> cmumps_ooc.F:525.36: >>>> >>>> DO I1=1,id%OOC_NB_FILE_TYPE >>>> 1 >>>> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' >>>> structure >>>> cmumps_ooc.F:540.12: >>>> >>>> ENDDO >>>> 1 >>>> Error: Expecting END IF statement at (1) >>>> cmumps_ooc.F:562.31: >>>> >>>> IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) >>>> 1 >>>> Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' >>>> structure >>>> cmumps_ooc.F:677.42: >>>> >>>> OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE >>>> 1 >>>> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' >>>> structure >>>> make[3]: *** [cmumps_ooc.o] Error 1 >>>> make[2]: *** [c] Error 2 >>>> make[1]: *** [mumps_lib] Error 2 >>>> make: *** [c] Error 2 >>>> ******************************************************************************* >>>> >>

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Re: [petsc-dev] --download-petsc4py install path
by Chaffra Affouda 28 Sep '15

28 Sep '15

got it. thanks. On 09/28/2015 09:57 AM, Satish Balay wrote: > When any externalpackage is installed with --download-package option - > it uses the same prefix [or none] as petsc. > > If you need a different install location for any external package - > you should install it manually - separately [and not use > --download-package option] > > Satish > > On Mon, 28 Sep 2015, Chaffra Affouda wrote: > >> Hi, >> >> Is there a way to specify where petsc4py and mpi4py are installed during >> configure? It defaults to install_prefix/lib but that's not always convenient. >> >> Cheers, >> Chaffra >> >> >>

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Re: [petsc-dev] Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Satish Balay 28 Sep '15

28 Sep '15

> Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --prefix=/home/chaffra/Projects/FEniCS COPTFLAGS=-O2 --with-debugging=1 --with-shared-libraries=1 --with-clanguage=cxx --with-c-support=1 --with-pthreadclasses=1 --with-openmp=1 --download-suitesparse=1 --download-hypre=1 --download-mumps=1 --download-scalapack=1 --download-blacs=1 --download-ptscotch=1 --download-scotch=1 --download-metis=1 --download-parmetis=1 --download-petsc4py=1 --download-mpi4py=1 What do you have for: ls /home/chaffra/Projects/FEniCS/include Also suggest not using: --with-clanguage=cxx --with-c-support=1 --with-pthreadclasses=1 --with-openmp=1 And there is no more option '--download-blacs=1' Satish On Mon, 28 Sep 2015, Chaffra Affouda wrote: > Hi Barry, > > I've erased everything under petsc, clone from git but mumps still won't > build. Attached is my configure.log. > > Thanks, > Chaffra > > On 09/25/2015 04:51 PM, Barry Smith wrote: > > Cannot explain this. Try deleting the entire PETSc directory and running > > again with --download-mumps send configure.log if it fails > > > > Barry > > > > > On Sep 25, 2015, at 3:29 PM, Chaffra Affouda<chaffra(a)gmail.com> wrote: > > > > > > Hi, > > > > > > I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is > > > mumps broken here? I am using ubuntu trusty. > > > > > > make[1]: Leaving directory > > > `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: > > > In function ‘mumps_init_file_name’: > > > mumps_io_basic.c:579:14: warning: assignment discards ‘const’ qualifier > > > from pointer target type [enabled by default] > > > tmp_dir=MUMPS_OOC_DEFAULT_DIR; > > > ^ > > > cmumps_ooc.F:159.42: > > > > > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > > > 1 > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > structure > > > cmumps_ooc.F:525.36: > > > > > > DO I1=1,id%OOC_NB_FILE_TYPE > > > 1 > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > structure > > > cmumps_ooc.F:540.12: > > > > > > ENDDO > > > 1 > > > Error: Expecting END IF statement at (1) > > > cmumps_ooc.F:562.31: > > > > > > IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) > > > 1 > > > Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' > > > structure > > > cmumps_ooc.F:677.42: > > > > > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > > > 1 > > > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' > > > structure > > > make[3]: *** [cmumps_ooc.o] Error 1 > > > make[2]: *** [c] Error 2 > > > make[1]: *** [mumps_lib] Error 2 > > > make: *** [c] Error 2 > > > ******************************************************************************* > > > > >

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Re: [petsc-dev] --download-petsc4py install path
by Satish Balay 28 Sep '15

28 Sep '15

When any externalpackage is installed with --download-package option - it uses the same prefix [or none] as petsc. If you need a different install location for any external package - you should install it manually - separately [and not use --download-package option] Satish On Mon, 28 Sep 2015, Chaffra Affouda wrote: > Hi, > > Is there a way to specify where petsc4py and mpi4py are installed during > configure? It defaults to install_prefix/lib but that's not always convenient. > > Cheers, > Chaffra > > >

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--download-petsc4py install path
by Chaffra Affouda 28 Sep '15

28 Sep '15

Hi, Is there a way to specify where petsc4py and mpi4py are installed during configure? It defaults to install_prefix/lib but that's not always convenient. Cheers, Chaffra

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Re: [petsc-dev] Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Chaffra Affouda 28 Sep '15

28 Sep '15

Hi Barry, I've erased everything under petsc, clone from git but mumps still won't build. Attached is my configure.log. Thanks, Chaffra On 09/25/2015 04:51 PM, Barry Smith wrote: > Cannot explain this. Try deleting the entire PETSc directory and running again with --download-mumps send configure.log if it fails > > Barry > >> On Sep 25, 2015, at 3:29 PM, Chaffra Affouda<chaffra(a)gmail.com> wrote: >> >> Hi, >> >> I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is mumps broken here? I am using ubuntu trusty. >> >> make[1]: Leaving directory `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: In function ‘mumps_init_file_name’: >> mumps_io_basic.c:579:14: warning: assignment discards ‘const’ qualifier from pointer target type [enabled by default] >> tmp_dir=MUMPS_OOC_DEFAULT_DIR; >> ^ >> cmumps_ooc.F:159.42: >> >> OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE >> 1 >> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure >> cmumps_ooc.F:525.36: >> >> DO I1=1,id%OOC_NB_FILE_TYPE >> 1 >> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure >> cmumps_ooc.F:540.12: >> >> ENDDO >> 1 >> Error: Expecting END IF statement at (1) >> cmumps_ooc.F:562.31: >> >> IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) >> 1 >> Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' structure >> cmumps_ooc.F:677.42: >> >> OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE >> 1 >> Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure >> make[3]: *** [cmumps_ooc.o] Error 1 >> make[2]: *** [c] Error 2 >> make[1]: *** [mumps_lib] Error 2 >> make: *** [c] Error 2 >> ******************************************************************************* >>

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Re: [petsc-dev] Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Barry Smith 25 Sep '15

25 Sep '15

Cannot explain this. Try deleting the entire PETSc directory and running again with --download-mumps send configure.log if it fails Barry > On Sep 25, 2015, at 3:29 PM, Chaffra Affouda <chaffra(a)gmail.com> wrote: > > Hi, > > I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is mumps broken here? I am using ubuntu trusty. > > make[1]: Leaving directory `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: In function ‘mumps_init_file_name’: > mumps_io_basic.c:579:14: warning: assignment discards ‘const’ qualifier from pointer target type [enabled by default] > tmp_dir=MUMPS_OOC_DEFAULT_DIR; > ^ > cmumps_ooc.F:159.42: > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > 1 > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure > cmumps_ooc.F:525.36: > > DO I1=1,id%OOC_NB_FILE_TYPE > 1 > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure > cmumps_ooc.F:540.12: > > ENDDO > 1 > Error: Expecting END IF statement at (1) > cmumps_ooc.F:562.31: > > IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) > 1 > Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' structure > cmumps_ooc.F:677.42: > > OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE > 1 > Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure > make[3]: *** [cmumps_ooc.o] Error 1 > make[2]: *** [c] Error 2 > make[1]: *** [mumps_lib] Error 2 > make: *** [c] Error 2 > ******************************************************************************* >

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Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure
by Chaffra Affouda 25 Sep '15

25 Sep '15

Hi, I cannot build petsc-3.6.1 on ubuntu. I am getting the error below. Is mumps broken here? I am using ubuntu trusty. make[1]: Leaving directory `petsc-3.6.1/arch-linux2-cxx-opt/externalpackages/MUMPS'mumps_io_basic.c: In function ‘mumps_init_file_name’: mumps_io_basic.c:579:14: warning: assignment discards ‘const’ qualifier from pointer target type [enabled by default] tmp_dir=MUMPS_OOC_DEFAULT_DIR; ^ cmumps_ooc.F:159.42: OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE 1 Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure cmumps_ooc.F:525.36: DO I1=1,id%OOC_NB_FILE_TYPE 1 Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure cmumps_ooc.F:540.12: ENDDO 1 Error: Expecting END IF statement at (1) cmumps_ooc.F:562.31: IF(.NOT. id%IF_RESTARTING) CALL CMUMPS_OOC_CLEAN_FILES(id,IERR) 1 Error: 'if_restarting' at (1) is not a member of the 'cmumps_struc' structure cmumps_ooc.F:677.42: OOC_NB_FILE_TYPE=id%OOC_NB_FILE_TYPE 1 Error: 'ooc_nb_file_type' at (1) is not a member of the 'cmumps_struc' structure make[3]: *** [cmumps_ooc.o] Error 1 make[2]: *** [c] Error 2 make[1]: *** [mumps_lib] Error 2 make: *** [c] Error 2 *******************************************************************************

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Re: [petsc-dev] broken options handling with intel 16.0 compilers on mac OS
by Jed Brown 23 Sep '15

23 Sep '15

Jeff Hammond <jeff.science(a)gmail.com> writes: > What the specification document says is irrelevant, since every > implementation still supports the C++ bindings. They can be disabled > explicitly in MPICH (and derivatives) via MPICH_SKIP_MPICXX and in OpenMPI > with OMPI_SKIP_MPICXX. It's a linking discussion, and you would only need to link libmpicxx.so (or whatever) if you actually used those bindings. We certainly don't do that and any other project that still uses them should be chastised. BTW, PETSc defines the above macros for simplicity and to avoid the unfortunate messes that used to plague the C++ implementations.

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