Hi Lorenzo, Yes, I could fix the problem, or at least the most important one, the hdf5 issue. I delete pre-compiled version of hdf5. I download hdf5 source. I installed it from source in the standard directory /usr/local/hdf5, enabling fortran and C++ (version: hdf5 1.8.11) ./configure --prefix=/usr/local/hdf5 --enable-fortran --enable-cxx Make Make install
(you can make check also before install) I edit /etc/ld.so.conf I add to the file : /usr/local/lib /usr/local/hdf5/lib I download h5utils export LDFLAGS="-L/usr/local/hdf5/lib" export CDFLAGS="-I/usr/local/hdf5/include" ./configure make make install I go to meep 2.0.1 /.configure --with-libctcl=*************** --with-blas=************ --with-lapack=********* Make Make install Openblas, libctl and few other libraries were installed in advance by "yum" or by source This works for me as root. I hope works for you regards -----Mensaje original----- De: meep-discuss-boun...@ab-initio.mit.edu [mailto:meep-discuss-boun...@ab-initio.mit.edu] En nombre de Lorenzo Enviado el: miércoles, 03 de julio de 2013 17:24 Para: meep-discuss@ab-initio.mit.edu Asunto: Re: [Meep-discuss] hdf5 error. HDF5 is found during the compilation but not when I run meep Guillermo Román <groman@...> writes: > > > > hiI’m newer in meep.I've installed meep 1.2.1.These are my ./configure Warnings (as you can see there is not any warning for hdf5):configure: WARNING: Cannot find latex2html in your path!configure: WARNING: FFTW needed for MPBconfigure: WARNING: harminv support is disabledconfigure: WARNING: Missing GNU GSL library...Bessel-function field initialization will not be supported.About these warnings, I have 2 questions: > 1 Question: I don't know how to link FFTW2 Question: how I fix Bessel- function ...? (this is not quite important right now)My "make" gives me a huge amount of deprecated errors3 Question: Should I be worried about this? My "make install" worksMy "make check" is as follow:FAIL: aniso_dispPASS: benchPASS: bragg_transmissionPASS: convergence_cyl_waveguidePASS: cylindricalPASS: fluxPASS: harmonicsPASS: integratePASS: known_resultsPASS: one_dimensionalPASS: physicalPASS: stress_tensorPASS: symmetryPASS: three_dPASS: two_dimensionalPASS: 2D_convergencePASS: h5testPASS: pml4 Question: Why does aniso_disp fail? I don't knowI run Meep and example Fields in a waveguide/ A straight waveguide from oficial website. I get this output:Initializing structure...Working in 2D dimensions.Computational cell is 16 x 8 x 0 with resolution 10 block, center = (0,0,0) size (1e+20,1,1e+20) axes (1,0,0), (0,1,0), (0,0,1) dielectric constant epsilon diagonal = (12,12,12)time for set_epsilon = 0.038645 s----- ------creating output file "./eps-000000.00.h5"...meep: not compiled with HDF5, required for HDF5 outputSome deprecated features have been used. Set the environmentvariable GUILE_WARN_DEPRECATED to "detailed" and rerun theprogram to get more information. Set it to "no" to suppress > 5 Question: Why meep doesn’t find hdf5? I fixed that error in my ./configure, hdf5 libraries were found > Please help!!!Thanks you in advance > Note: I don’t use mpi support > > No se encontraron virus en este mensaje. > Comprobado por AVG - www.avg.com > Versión: 2013.0.2904 / Base de datos de virus: 3204/6454 - Fecha de publicación: 07/01/13 > > > _______________________________________________ > meep-discuss mailing list > meep-discuss@... > http://ab-initio.mit.edu/cgi-bin/mailman/listinfo/meep-discuss Hi, I' m having exactly the same problem and I cannot solve it. Have you already fixed the problem? If yes I will be so grateful if you can give me suggestion. Thanks Lorenzo _______________________________________________ meep-discuss mailing list meep-discuss@ab-initio.mit.edu http://ab-initio.mit.edu/cgi-bin/mailman/listinfo/meep-discuss ----- No se encontraron virus en este mensaje. Comprobado por AVG - www.avg.com Versión: 2013.0.2904 / Base de datos de virus: 3204/6458 - Fecha de publicación: 07/02/13 ----- No se encontraron virus en este mensaje. Comprobado por AVG - www.avg.com Versión: 2013.0.2904 / Base de datos de virus: 3204/6461 - Fecha de publicación: 07/03/13 _______________________________________________ meep-discuss mailing list meep-discuss@ab-initio.mit.edu http://ab-initio.mit.edu/cgi-bin/mailman/listinfo/meep-discuss
