Hi Timo, The output I get is:
# DEAL_II_WITH_HDF5 set up with external dependencies # HDF5_DIR = /Users/fr714/dealii-candi-basic/hdf5-1.10.7 # HDF5_INCLUDE_DIRS = /Users/fr714/dealii-candi-basic/hdf5-1.10.7/include # HDF5_USER_INCLUDE_DIRS = /Users/fr714/dealii-candi-basic/hdf5-1.10.7/include # HDF5_LIBRARIES = /Users/fr714/dealii-candi-basic/hdf5-1.10.7/lib/libhdf5_hl.dylib;/Users/fr714/dealii-candi-basic/hdf5-1.10.7/lib/libhdf5.dylib Best, Fred On Tuesday, April 5, 2022 at 4:54:41 PM UTC+1 Timo Heister wrote: > Can you post the output of "grep HDF5 detailed.log" in the directory > /Users/fr714/dealii-candi-basic/tmp/unpack/deal.II-v9.3.3/ please? > > > On Tuesday, April 5, 2022 at 9:18:01 AM UTC-4 [email protected] wrote: > >> I also have the same issue, irrespective of whether I try to compile >> using the v9.3.3 or the master version of deal.ii. I'm on Apple M1 Monterey >> 12.3. >> >> Here's the compilation error for source/base/hdf5.cc: >> >> In file included from >> /Users/fr714/dealii-candi-basic/tmp/unpack/deal.II-v9.3.3/source/base/hdf5.cc:20: >> >> /Users/fr714/dealii-candi-basic/tmp/unpack/deal.II-v9.3.3/include/deal.II/base/hdf5.h:1470:30: >> >> error: use of undeclared identifier 'H5Pset_dxpl_mpio' >> >> const herr_t ret = H5Pset_dxpl_mpio(plist, >> H5FD_MPIO_COLLECTIVE); >> >> ^ >> >> /Users/fr714/dealii-candi-basic/tmp/unpack/deal.II-v9.3.3/include/deal.II/base/hdf5.h:1502:21: >> >> error: use of undeclared identifier 'H5Pget_mpio_actual_io_mode' >> >> ret = H5Pget_mpio_actual_io_mode(plist, &io_mode); >> >> ^ >> >> /Users/fr714/dealii-candi-basic/tmp/unpack/deal.II-v9.3.3/include/deal.II/base/hdf5.h:1505:17: >> >> error: use of undeclared identifier 'H5Pget_mpio_no_collective_cause' >> >> H5Pget_mpio_no_collective_cause(plist, >> >> ^ >> >> 3 errors generated. >> >> Seems odd as the correct version of hdf5 and all associated libraries >> seems to be found OK in the configuration step. >> >> On Friday, April 1, 2022 at 8:09:31 AM UTC+1 [email protected] wrote: >> >>> Hi! I am also trying to install Dealii on Apple M1 Monterey 12.2.1. I >>> also got similar "failure with exit status: 2". May I ask what is the >>> difference between the master version in this conversation and v9.3.3? Many >>> thanks in advance. >>> >>> On Friday, March 18, 2022 at 7:29:46 AM UTC-7 [email protected] wrote: >>> >>>> I removed this Master version, and install 9.3.3 version, it worked! >>>> Many thanks Timo. >>>> On Friday, 18 March 2022 at 13:46:01 UTC Masoud Ahmadi wrote: >>>> >>>>> Thanks Timo. >>>>> I removed homebrew entirely, then reinstall it and just run: >>>>> brew install cmake open-mpi gcc >>>>> >>>>> Then I install the master version, this time the setup was completed; >>>>> however, when I tried to run step-1 example, this happened: >>>>> [image: Screenshot 2022-03-18 at 12.30.12.png] >>>>> On Wednesday, 16 March 2022 at 15:17:09 UTC Timo Heister wrote: >>>>> >>>>>> > # SCALAPACK_LIBRARIES = /opt/homebrew/lib/libscalapack.dylib;-lm;- >>>>>> >>>>>> It looks like you have a scalapack installation that got picked up >>>>>> and >>>>>> caused the error. Can you do >>>>>> cmake -D DEAL_II_WITH_SCALAPACK=OFF . >>>>>> in the directory where you found the detailed.log? Follow that by >>>>>> make install >>>>>> (you can use -j to use more cores of course). >>>>>> >>>>>> >>>>>> On Wed, Mar 16, 2022 at 9:42 AM Masoud Ahmadi <[email protected]> >>>>>> wrote: >>>>>> > >>>>>> > I had removed candi, so I had to reinstall it. >>>>>> > But again got the same error. >>>>>> > The requested log file is attached. Please see. >>>>>> > >>>>>> > >>>>>> > >>>>>> > On Tuesday, 15 March 2022 at 13:00:35 UTC Timo Heister wrote: >>>>>> >> >>>>>> >> Can you please post your >>>>>> /Users/masoud/dealii-candi/tmp/build/deal.II-master/detailed.log ? >>>>>> >> >>>>>> >> On Tue, Mar 15, 2022 at 7:18 AM Masoud Ahmadi <[email protected]> >>>>>> wrote: >>>>>> >>> >>>>>> >>> Thanks Timo, >>>>>> >>> >>>>>> >>> I tried to switch to master, but again the same thing happened. >>>>>> >>> So, now on the master branch of candi, same error. >>>>>> >>> I attached the log file, please take a look. >>>>>> >>> >>>>>> >>> >>>>>> >>> On Sunday, 13 March 2022 at 19:55:52 UTC Timo Heister wrote: >>>>>> >>>> >>>>>> >>>> What candi git branch are you on? You might need to switch to >>>>>> master to make things work for now. >>>>>> >>>> >>>>>> >>>> Can you post how you execute candi.sh including the first few >>>>>> pages of output? >>>>>> >>>> >>>>>> >>>> On Sun, Mar 13, 2022, 06:42 Masoud Ahmadi <[email protected]> >>>>>> wrote: >>>>>> >>>>> >>>>>> >>>>> Dear Timo, >>>>>> >>>>> >>>>>> >>>>> No, I did not change anything; I did exactly what is explained >>>>>> in the following link, step by step: >>>>>> >>>>> https://github.com/dealii/dealii/wiki/Apple-ARM-M1-OSX >>>>>> >>>>> >>>>>> >>>>> On Saturday, 12 March 2022 at 16:54:56 UTC Timo Heister wrote: >>>>>> >>>>>> >>>>>> >>>>>> Did you make any changes to candi.cfg? Can you also please >>>>>> post how you execute candi.sh (what arguments)? >>>>>> >>>>>> >>>>>> >>>>>> On Mon, Mar 7, 2022, 12:23 Masoud Ahmadi <[email protected]> >>>>>> wrote: >>>>>> >>>>>>> >>>>>> >>>>>>> Hi, >>>>>> >>>>>>> >>>>>> >>>>>>> I am trying to install dealii on a apple ARM M1 OSX, using >>>>>> the following instructor: >>>>>> >>>>>>> https://github.com/dealii/dealii/wiki/Apple-ARM-M1-OSX >>>>>> >>>>>>> >>>>>> >>>>>>> However, I get the following error: >>>>>> >>>>>>> >>>>>> >>>>>>> >>>>>> >>>>>>> error: use of undeclared identifier 'H5Pset_dxpl_mpio' >>>>>> >>>>>>> status = H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_INDEPENDENT); >>>>>> >>>>>>> ^ >>>>>> >>>>>>> >>>>>> /Users/masoud/dealii-candi/tmp/unpack/deal.II-v9.3.3/source/lac/scalapack.cc:3242:63: >>>>>> >>>>>> warning: unused parameter 'filename' [-Wunused-parameter] >>>>>> >>>>>>> ScaLAPACKMatrix<NumberType>::load_parallel(const std::string >>>>>> &filename) >>>>>> >>>>>>> ^ >>>>>> >>>>>>> >>>>>> /Users/masoud/dealii-candi/tmp/unpack/deal.II-v9.3.3/source/lac/scalapack.cc:2861:20: >>>>>> >>>>>> error: use of undeclared identifier 'H5Pset_fapl_mpio' >>>>>> >>>>>>> status = H5Pset_fapl_mpio(plist_id, >>>>>> tmp.grid->mpi_communicator, info); >>>>>> >>>>>>> ^ >>>>>> >>>>>>> >>>>>> /Users/masoud/dealii-candi/tmp/build/deal.II-v9.3.3/source/lac/scalapack.inst:10:16: >>>>>> >>>>>> note: in instantiation of member function >>>>>> 'dealii::ScaLAPACKMatrix<double>::save_parallel' requested here >>>>>> >>>>>>> template class ScaLAPACKMatrix< double >; >>>>>> >>>>>>> ^ >>>>>> >>>>>>> >>>>>> /Users/masoud/dealii-candi/tmp/unpack/deal.II-v9.3.3/source/lac/scalapack.cc:2861:20: >>>>>> >>>>>> error: use of undeclared identifier 'H5Pset_fapl_mpio' >>>>>> >>>>>>> status = H5Pset_fapl_mpio(plist_id, >>>>>> tmp.grid->mpi_communicator, info); >>>>>> >>>>>>> ^ >>>>>> >>>>>>> >>>>>> /Users/masoud/dealii-candi/tmp/build/deal.II-v9.3.3/source/lac/scalapack.inst:20:16: >>>>>> >>>>>> note: in instantiation of member function >>>>>> 'dealii::ScaLAPACKMatrix<float>::save_parallel' requested here >>>>>> >>>>>>> template class ScaLAPACKMatrix< float >; >>>>>> >>>>>>> ^ >>>>>> >>>>>>> 1 warning and 3 errors generated. >>>>>> >>>>>>> >>>>>> >>>>>>> >>>>>> >>>>>>> >>>>>> >>>>>>> -- >>>>>> >>>>>>> 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 [email protected]. >>>>>> >>>>>>> To view this discussion on the web visit >>>>>> https://groups.google.com/d/msgid/dealii/5f96b566-3112-4dda-bb63-86e61b654156n%40googlegroups.com. >>>>>> >>>>>> >>>>>> >>>>> >>>>>> >>>>> -- >>>>>> >>>>> 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 [email protected]. >>>>>> >>>>> >>>>>> >>>>> To view this discussion on the web visit >>>>>> https://groups.google.com/d/msgid/dealii/957d0cc5-e3a8-4922-a770-794a3192a6a0n%40googlegroups.com. >>>>>> >>>>>> >>>>>> >>> >>>>>> >>> -- >>>>>> >>> 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 [email protected]. >>>>>> >>> >>>>>> >>> To view this discussion on the web visit >>>>>> https://groups.google.com/d/msgid/dealii/6fcaf535-65c6-4d28-84ef-ccabd4e12833n%40googlegroups.com. >>>>>> >>>>>> >>>>>> >> >>>>>> >> >>>>>> >> >>>>>> >> -- >>>>>> >> Timo Heister >>>>>> >> http://www.math.clemson.edu/~heister/ >>>>>> > >>>>>> > -- >>>>>> > 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 [email protected]. >>>>>> > To view this discussion on the web visit >>>>>> https://groups.google.com/d/msgid/dealii/e4821e6f-0b25-43f5-8353-6d8903b523b0n%40googlegroups.com. >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> -- >>>>>> Timo Heister >>>>>> http://www.math.clemson.edu/~heister/ >>>>>> >>>>> -- 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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