Alberto, If the question is "can dealii read a gmsh file without gmsh support ?" the answer is yes. The gmsh support is for deal.II to use gmsh internally not to read a gmsh file.
Best, Bruno On Friday, July 30, 2021 at 11:09:28 AM UTC-4 Alberto Salvadori wrote: > Bruno, > > I do import gmsh triangulations in dealii simulations. Would this be > possible without including gmsh ? > > Alberto > > > *Alberto Salvadori* Dipartimento di Ingegneria Meccanica e Industriale > (DIMI) > Universita` di Brescia, via Branze 43, 25123 Brescia > Italy > tel 030 3715426 > > e-mail: > alberto....@unibs.it > web-page: > http://m4lab.unibs.it/faculty.html > > > On Fri, Jul 30, 2021 at 5:01 PM Bruno Turcksin <bruno.t...@gmail.com> > wrote: > >> Alberto, >> >> My experience with spack is to use a release version instead of the >> development version. They are too many moving parts in spack to expect the >> development version to be stable. My first question is do you need gmsh >> support in deal.II? If not you can just do spack install dealii~gmsh. If >> you need gmsh, can you try spack spec dealii^gmsh~med to check that spack >> can concretize the package. >> >> Best, >> >> Bruno >> >> On Friday, July 30, 2021 at 10:39:13 AM UTC-4 Alberto Salvadori wrote: >> >>> Thank you, Bruno. >>> It looks like gmsh is the package which requires med: >>> >>> >>> ^gm...@4.8.4%g...@7.4.0+alglib~cairo+cgns+compression~eigen~external+fltk+gmp~hdf5~ipo+med+metis+mmg~mpi+netgen+oce~opencascade~openmp~petsc~privateapi+shared~slepc+tetgen+voropp >>> >>> build_type=RelWithDebInfo arch=linux-centos7-broadwell >>> >>> I am using >>> >>> [asalvado@r000u07l02 uBS21_CivSal_0]$ spack --version >>> >>> 0.16.2-3715-a904418 >>> >>> Your help is appreciated. >>> Alberto >>> >>> >>> >>> >>> *Alberto Salvadori* Dipartimento di Ingegneria Meccanica e Industriale >>> (DIMI) >>> Universita` di Brescia, via Branze 43, 25123 Brescia >>> Italy >>> tel 030 3715426 >>> >>> e-mail: >>> alberto....@unibs.it >>> web-page: >>> http://m4lab.unibs.it/faculty.html >>> >>> >>> >>> On Fri, Jul 30, 2021 at 4:12 PM Bruno Turcksin <bruno.t...@gmail.com> >>> wrote: >>> >>>> Alberto, >>>> >>>> I have no clue what med is, so it's not a basic dependency of deal.II. >>>> Which version of spack are you using? I don't see a dependency on med when >>>> I do `spack speck dealii` You can tell spack not to install med but you >>>> need to know which package pulled it. >>>> >>>> Best, >>>> >>>> Bruno >>>> >>>> On Friday, July 30, 2021 at 8:48:04 AM UTC-4 Alberto Salvadori wrote: >>>> >>>>> Dear community >>>>> >>>>> while installing deal.ii on a centos cluster, I am facing the >>>>> following issue related to med : >>>>> >>>>> *==>* *Installing* *med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf* >>>>> >>>>> *==>* Warning: Spack will not check SSL certificates. You need to >>>>> update your Python to enable certificate verification. >>>>> >>>>> *==>* No binary for med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf found: >>>>> installing from source >>>>> >>>>> *==>* Using cached archive: >>>>> /marconi_work/uBS21_CivSal_0/spack/var/spack/cache/_source-cache/archive/a4/a474e90b5882ce69c5e9f66f6359c53b8b73eb448c5f631fa96e8cd2c14df004.tar.gz >>>>> >>>>> *==>* No patches needed for med >>>>> >>>>> *==>* med: Executing phase: 'cmake' >>>>> >>>>> *==>* Error: ProcessError: Command exited with status 1: >>>>> >>>>> 'cmake' '-G' 'Unix Makefiles' >>>>> '-DCMAKE_INSTALL_PREFIX:STRING=/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf' >>>>> >>>>> '-DCMAKE_BUILD_TYPE:STRING=RelWithDebInfo' >>>>> '-DCMAKE_INTERPROCEDURAL_OPTIMIZATION:BOOL=OFF' >>>>> '-DCMAKE_VERBOSE_MAKEFILE:BOOL=ON' >>>>> '-DCMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL=OFF' >>>>> '-DCMAKE_INSTALL_RPATH:STRING=/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf/lib64;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/hdf5-1.10.7-nrpa5xndtz4a2yo6xjulubsoqufllvpo/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/numactl-2.0.14-qtf6zwk7cppy35evzpg5bvngl4uioe7v/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/openmpi-4.1.1-ctp6zbck3skxoohx24qake6oljk6ufzr/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/hwloc-2.5.0-g27bmqmr42ruvvwvhvxuqoyk22xokrah/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libpciaccess-0.16-3lmrc4ak3cqlrwdmu3rwgmdzj6256j6q/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libxml2-2.9.10-r7ofye65rymwgmbdqgka3tnwbzw3kcvx/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libiconv-1.16-meyg2avc5ldglxqayvrmzltjirkpgplv/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/xz-5.2.5-wczw77mhc2n2anwdvurydxw45nifh5ik/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/zlib-1.2.11-w4v4ex6wf3qcmkuxdnmga7snctdxiz6h/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/ncurses-6.2-73efdut6ehthgyksblf3qjpmgm7rtced/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libevent-2.1.12-2y4ktlntxfx32bacu2rrpvmummy7zslt/lib;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/openssl-1.1.1k-p5o7iymffnfrwrakncqzibjwoxoutlsj/lib' >>>>> >>>>> '-DCMAKE_PREFIX_PATH:STRING=/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/hdf5-1.10.7-nrpa5xndtz4a2yo6xjulubsoqufllvpo;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/openmpi-4.1.1-ctp6zbck3skxoohx24qake6oljk6ufzr;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libevent-2.1.12-2y4ktlntxfx32bacu2rrpvmummy7zslt;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/hwloc-2.5.0-g27bmqmr42ruvvwvhvxuqoyk22xokrah;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libxml2-2.9.10-r7ofye65rymwgmbdqgka3tnwbzw3kcvx;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/xz-5.2.5-wczw77mhc2n2anwdvurydxw45nifh5ik;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libpciaccess-0.16-3lmrc4ak3cqlrwdmu3rwgmdzj6256j6q;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/numactl-2.0.14-qtf6zwk7cppy35evzpg5bvngl4uioe7v;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/cmake-3.20.5-gnzlzwmoxs5uf2q2sxke33gf2f7atp7h;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/openssl-1.1.1k-p5o7iymffnfrwrakncqzibjwoxoutlsj;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/zlib-1.2.11-w4v4ex6wf3qcmkuxdnmga7snctdxiz6h;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/libiconv-1.16-meyg2avc5ldglxqayvrmzltjirkpgplv;/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/ncurses-6.2-73efdut6ehthgyksblf3qjpmgm7rtced' >>>>> >>>>> '-DHDF5_ROOT_DIR:STRING=/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/hdf5-1.10.7-nrpa5xndtz4a2yo6xjulubsoqufllvpo' >>>>> >>>>> '-DMEDFILE_BUILD_TESTS:BOOL=OFF' '-DMEDFILE_BUILD_PYTHON:BOOL=OFF' >>>>> '-DMEDFILE_INSTALL_DOC:BOOL=OFF' '-DCMAKE_Fortran_COMPILER=' >>>>> '-DCMAKE_CXX_FLAGS:STRING=-DMED_API_23=1' >>>>> '-DCMAKE_C_FLAGS:STRING=-DMED_API_23=1' '-DMED_API_23=1' >>>>> '-DMEDFILE_BUILD_SHARED_LIBS=OFF' '-DMEDFILE_BUILD_STATIC_LIBS=ON' >>>>> '-DMEDFILE_USE_MPI=YES' >>>>> '-DMPI_ROOT_DIR=/marconi_work/uBS21_CivSal_0/spack/opt/spack/linux-centos7-broadwell/gcc-7.4.0/openmpi-4.1.1-ctp6zbck3skxoohx24qake6oljk6ufzr' >>>>> >>>>> '/marconi_scratch/userexternal/asalvado/tmp/spack-stage/spack-stage-med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf/spack-src' >>>>> >>>>> >>>>> 1 error found in build log: >>>>> >>>>> 21 -- Detecting CXX compile features >>>>> >>>>> 22 -- Detecting CXX compile features - done >>>>> >>>>> 23 -- No Fortran support >>>>> >>>>> 24 -- Check for HDF5 ... >>>>> >>>>> 25 -- Found HDF5 in CONFIG mode! >>>>> >>>>> 26 -- Found HDF5 version 1.10.7 -- parallel flag is set to ON >>>>> >>>>> >> 27 CMake Error at config/cmake_files/FindMedfileHDF5.cmake:118 >>>>> (GET_PRO >>>>> >>>>> PERTY): >>>>> >>>>> 28 GET_PROPERTY could not find TARGET hdf5. Perhaps it has >>>>> not yet b >>>>> >>>>> een >>>>> >>>>> 29 created. >>>>> >>>>> 30 Call Stack (most recent call first): >>>>> >>>>> 31 config/cmake_files/medMacros.cmake:396 (FIND_PACKAGE) >>>>> >>>>> 32 CMakeLists.txt:101 (MED_FIND_HDF5) >>>>> >>>>> 33 >>>>> >>>>> >>>>> The build log >>>>> >>>>> >>>>> /marconi_scratch/userexternal/asalvado/tmp/spack-stage/spack-stage-med-4.0.0-d65qwjrfigoxirhf5xy6lsumdwpcvluf/spack-build-out.txt >>>>> >>>>> clarifies that the error is >>>>> >>>>> -- Check for HDF5 ... >>>>> >>>>> -- Found HDF5 in CONFIG mode! >>>>> >>>>> -- Found HDF5 version 1.10.7 -- parallel flag is set to ON >>>>> >>>>> CMake Error at config/cmake_files/FindMedfileHDF5.cmake:118 >>>>> (GET_PROPERTY): >>>>> >>>>> GET_PROPERTY could not find TARGET hdf5. Perhaps it has not yet been >>>>> >>>>> created. >>>>> >>>>> Call Stack (most recent call first): >>>>> >>>>> config/cmake_files/medMacros.cmake:396 (FIND_PACKAGE) >>>>> >>>>> CMakeLists.txt:101 (MED_FIND_HDF5) >>>>> >>>>> >>>>> This looks like a SPACK issue, isn't it? Is there anyway a way to >>>>> advice spack not to install med or is it a basic ingredient for deal.ii? >>>>> >>>>> Thank you, >>>>> Alberto >>>>> >>>>> -- >>>> 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/a3cf5c27-281e-42fc-9d49-dd6789afbbb5n%40googlegroups.com >>>> >>>> <https://groups.google.com/d/msgid/dealii/a3cf5c27-281e-42fc-9d49-dd6789afbbb5n%40googlegroups.com?utm_medium=email&utm_source=footer> >>>> . >>>> >>> >>> >>> Informativa sulla Privacy: http://www.unibs.it/node/8155 >>> >> -- >> 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/ee97462e-8364-41a8-80e7-88467925d876n%40googlegroups.com >> >> <https://groups.google.com/d/msgid/dealii/ee97462e-8364-41a8-80e7-88467925d876n%40googlegroups.com?utm_medium=email&utm_source=footer> >> . >> > > > Informativa sulla Privacy: http://www.unibs.it/node/8155 > -- 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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