Technical Aspects

Subcategories

• ---

• Installation and Configuration

  Scripts, Objects, Libraries

  4 Topics

  13 Posts

  undefined

  Hi Jack,
  compiling from objects on Apple Silicon is possible, but there are two critical requirements:

  You must use OpenMPI built with the same GNU Fortran version used to compile the object files (in particular gfortran 12.1)

  You must use the MPI compiler wrappers (mpif90, mpicc, mpicxx) instead of the plain compilers for the final linking stage

  The default include file is almost correct. The only necessary changes are the compiler definitions. Replace the first lines with:

  F90 = mpif90 LD = $(F90) PLD = mpif90

  Keep the rest unchanged.

  Important notes

  The OpenMPI you use must be built against gfortran 12.1. You can check with:

  mpif90 --show

  or

  mpif90 --version

  and verify that it points to gfortran-12.

  Do not mix different GNU Fortran versions (e.g. gfortran 13 or Apple clang).
  A mismatch here is the most common cause of runtime failures.

• Running CRYSTAL in Parallel

  Pcrystal, MPPcrystal, MPI, OpenMP, GPUs

  7 Topics

  37 Posts

  undefined

  Hi Jack,

  the parallel version of CRYSTAL23 shipped for Apple Silicon is built with OpenMPI 4.1.1, therefore it is essential that the code is executed using the same mpirun version (or at least the same major version, ie 4.x.x).

  If a different OpenMPI installation is used (for example the Homebrew 5.x one), the program may start but fail internally, leading to errors such as the abnormal SCF termination you originally observed.

  Concerning the message ls: No match. this is just a standard shell warning printed when the ls command does not find the files it is looking for.
  It is probably produced by the run script when it tries to list some output or scratch files that may not exist (for example if the job stops before all files are written).

  It is not an error of CRYSTAL itself.

  You may try searching inside the run script to locate the line containing the ls command. From the path and filename it is trying to list, you can understand whether the file is genuinely not produced or if the script is looking in the wrong path.

  Hope this helps.

• Bug Reports

  Report bugs with reproduciple example

  7 Topics

  40 Posts

  undefined

  Dear Alexander,
  We runned a few tests, and, indeed, we found the same behavior. This, though, is not due to an error in the definition in the basis set, but rather to some formatting issue, since the Cs goes up to P4 the code expects that also the Iodine pseudo goes up to P4 and fills the missing coefficients and exponents with zeros.

  Luckily there is an easy workaround to this, it is sufficient to flip Cs and I definition in the geometry and the results are the same as the one you obtained by defining the basis set in the input as you can see from my test.

  I will leave you here two output snippets hoping that they help clarifying the issue:

  Cs defined before I in the geometry section INPUT COORDINATES ATOM AT. N. COORDINATES 1 38 5.000000000000E-01 5.000000000000E-01 5.000000000000E-01 2 55 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 3 53 0.000000000000E+00 5.000000000000E-01 5.000000000000E-01 [...] ******************************************************************************* *** PSEUDOPOTENTIAL INFORMATION *** ******************************************************************************* ATOMIC NUMBER 38, NUCLEAR CHARGE 10.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 6.9334610 135.2710429 0 4.1140038 17.9440714 0 P1 TMS 7.2168166 29.4380813 0 7.1736962 58.8806749 0 3.0227988 4.9362827 0 2.8656990 9.7233521 0 P2 TMS 6.3215146 11.9072392 0 6.3914995 17.8595514 0 1.7697266 2.1991802 0 1.6367717 2.8935709 0 P3 TMS 4.2441984 -5.5093333 0 4.2291645 -7.3046417 0 ATOMIC NUMBER 55, NUCLEAR CHARGE 9.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 4.0811192 84.5477223 0 2.4215224 16.6540350 0 P1 TMS 5.5339726 52.3496307 0 5.5067944 104.6994132 0 2.2809616 8.8065577 0 2.1034905 17.6166111 0 P2 TMS 1.8131494 5.2689855 0 1.8077217 7.9036419 0 0.8729040 1.3364313 0 0.8587203 2.0056513 0 P3 TMS 5.2170839 -16.4976543 0 5.1481965 -23.3081313 0 1.5805995 -2.2368273 0 1.3478959 -2.2269420 0 P4 TMS 1.8077398 -2.5041987 0 1.8050613 -3.1382445 0 ATOMIC NUMBER 53, NUCLEAR CHARGE 25.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 40.0333760 49.9896490 0 17.3005760 281.0065560 0 8.8517200 61.4167390 0 P1 TMS 15.7201410 67.4162390 0 15.2082220 134.8076960 0 8.2941860 14.5665480 0 7.7539490 28.9684220 0 P2 TMS 13.8177510 35.5387560 0 13.5878050 53.3397590 0 6.9476300 9.7164660 0 6.9600990 14.9775000 0 P3 TMS 18.5229500 -20.1766180 0 18.2510350 -26.0880770 0 7.5579010 -0.2204340 0 7.5974040 -0.2216460 0 P4 TMS 0.0000000 0.0000000 0 0.0000000 0.0000000 0 I defined before Cs in the geometry section INPUT COORDINATES ATOM AT. N. COORDINATES 1 38 5.000000000000E-01 5.000000000000E-01 5.000000000000E-01 2 53 0.000000000000E+00 5.000000000000E-01 5.000000000000E-01 3 55 0.000000000000E+00 0.000000000000E+00 0.000000000000E+00 [...] ******************************************************************************* *** PSEUDOPOTENTIAL INFORMATION *** ******************************************************************************* ATOMIC NUMBER 38, NUCLEAR CHARGE 10.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 6.9334610 135.2710429 0 4.1140038 17.9440714 0 P1 TMS 7.2168166 29.4380813 0 7.1736962 58.8806749 0 3.0227988 4.9362827 0 2.8656990 9.7233521 0 P2 TMS 6.3215146 11.9072392 0 6.3914995 17.8595514 0 1.7697266 2.1991802 0 1.6367717 2.8935709 0 P3 TMS 4.2441984 -5.5093333 0 4.2291645 -7.3046417 0 ATOMIC NUMBER 53, NUCLEAR CHARGE 25.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 40.0333760 49.9896490 0 17.3005760 281.0065560 0 8.8517200 61.4167390 0 P1 TMS 15.7201410 67.4162390 0 15.2082220 134.8076960 0 8.2941860 14.5665480 0 7.7539490 28.9684220 0 P2 TMS 13.8177510 35.5387560 0 13.5878050 53.3397590 0 6.9476300 9.7164660 0 6.9600990 14.9775000 0 P3 TMS 18.5229500 -20.1766180 0 18.2510350 -26.0880770 0 7.5579010 -0.2204340 0 7.5974040 -0.2216460 0 ATOMIC NUMBER 55, NUCLEAR CHARGE 9.000, PSEUDOPOTENTIAL TYPE EXPONENT COEFF. N EXPONENT COEFF. N P0 TMS 4.0811192 84.5477223 0 2.4215224 16.6540350 0 P1 TMS 5.5339726 52.3496307 0 5.5067944 104.6994132 0 2.2809616 8.8065577 0 2.1034905 17.6166111 0 P2 TMS 1.8131494 5.2689855 0 1.8077217 7.9036419 0 0.8729040 1.3364313 0 0.8587203 2.0056513 0 P3 TMS 5.2170839 -16.4976543 0 5.1481965 -23.3081313 0 1.5805995 -2.2368273 0 1.3478959 -2.2269420 0 P4 TMS 1.8077398 -2.5041987 0 1.8050613 -3.1382445 0

  I hope this helps

• Interfacing CRYSTAL with Other Software

  Technical and scientific tips on interfacing CRYSTAL with other software

  0 Topics

  0 Posts

  No new posts.