cpsi data alloc: out of heap memory 0

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Just Got Here
Threads 1
Posts 1
10:35:03 AM PST - Wed, Nov 23rd 2016
Hello

I'm trying to to do band structure and density of state calculation of a tetragonal and cubic methyl ammonium lead iodide pervoskite, however for the tetragonal case, the output file gets terminated with repeating the error message. Any HELP provided is appreciated. THANKS

"cpsi_data_alloc: out of heap memory 0
------------------------------------------------------------------------

------------------------------------------------------------------------"
"15:15:cpsi_data_alloc: out of heap memory:: -1"


and finally getting terminated due to MPI abort being called.

I've tried many options to change the memory to the following but nothing worked:
1. memory 5000 mb
2. memory stack 3000 heap 1000 global 4000 mb
3. memory stack 2000 heap 100 global 1000 mb


However, the cubic structure case worked which in syntax (of the input file) was almost the same as both of them were inspired from the Diamond case tutorial for NWPW module of the NwChem.

[1]

I'm printing the output here of my input and output file respectively, since I can't find a way to attach them.

INPUT FILE:
echo
title "Lead Halide density of states calculation - Tetra"

memory 5000 mb

permanent_dir ./perm
scratch_dir ./scratch

start MAPbI3_tetra

geometry units angstroms center noautosym noautoz print
 system crystal

   lat_a 8.80000

   lat_b 8.80000

   lat_c 13.04750

   alpha 90.0

   beta  90.0

   gamma 90.0

 end

 symmetry P1

  C 0.028889      0.498316      0.250011

  C 0.531322      0.044999      0.249675

  C 0.044514      0.531832      0.748937

  C 0.498468      0.029432      0.750303

  N 0.926591      0.607350      0.195325

  N 0.428627      0.934084      0.198269

  N 0.934870      0.427511      0.697795

  N 0.606721      0.925884      0.695663

  H 0.651038      0.019289      0.227602

  H 0.516462      0.034554      0.334552

  H 0.501165      0.161493      0.223504

  H 0.453377      0.820754      0.219854

  H 0.440134      0.940659      0.117586

  H 0.312688      0.954669      0.216077

  H 0.936567      0.595452      0.114920

  H 0.953006      0.721459      0.212869

  H 0.810747      0.588889      0.214753

  H 0.148541      0.521347      0.226310

  H 0.997358      0.380706      0.228312

  H 0.015176      0.513549      0.334521

  H 0.953958      0.312643      0.718385

  H 0.945278      0.434463      0.617067

  H 0.820592      0.453878      0.716847

  H 0.162112      0.499909      0.725454

  H 0.030585      0.521128      0.833868

  H 0.020385      0.650267      0.723900

  H 0.721407      0.952766      0.711765

  H 0.593071      0.933366      0.615307

  H 0.588673      0.810832      0.716517

  H 0.521116      0.148133      0.725000

  H 0.515300      0.018068      0.834771

  H 0.380163      0.997370      0.730204

  Pb 0.509286      0.516734      0.988866

  Pb 0.517719      0.510297      0.488850

  Pb 0.030196      0.012069      0.489596

  Pb 0.010775      0.029892      0.989478

  I 0.703078      0.830381      0.994907

  I 0.324408      0.209077      0.997609

  I 0.207564      0.720815      0.998622

  I 0.830325      0.343607      0.989663

  I 0.343690      0.830181      0.490048

  I 0.720806      0.208628      0.499656

  I 0.831058      0.704858      0.494891

  I 0.209145      0.325347      0.496711

  I 0.523962      0.532514      0.239892

  I 0.532714      0.523880      0.739874

  I 0.005635      0.022809      0.741702

  I 0.022736      0.005856      0.241710
end

nwpw
 ewald_rcut 3.0

 ewald_ncut 8

 lmbfgs

 xc pbe96

 np_dimensions -1 -1 4

 monkhorst-pack 8 8 10
end
task band energy

set dos:npoints 1000
nwpw
  virtual 40

  dos-grid 10 10 10
end
task band dos

OUTPUT FILE
 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

         **********************************************************

         *                                                        *

         *                   NWPW BAND Calculation                *

         *                                                        *

         *  [(bundled Grassmann/Stiefel manifold implementation)] *

         *                                                        *

         *         [ NorthWest Chemistry implementation ]         *

         *                                                        *

         *                version #1.10   01/31/03                *

         *                                                        *

         *  A pseudopotential plane-wave band structure program   *

         *  with Brillouin zone sampling for optimizing crystals, *

         *  slabs, and polymers.  Developed by Eric J. Bylaska    *

         *  , Edoardo Apra, and Patrick Nichols.                  *

         *                                                        *

         **********************************************************

    >>>  JOB STARTED       AT Sat Nov 12 03:34:48 2016  <<<

         ================ input data ========================
 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for C



Generated formatted_filename: ./perm/C.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for N



Generated formatted_filename: ./perm/N.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for H



Generated formatted_filename: ./perm/H.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for Pb



Generated formatted_filename: ./perm/Pb.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for I



Generated formatted_filename: ./perm/I.cpp

random planewave guess, initial psi:MAPbI3_tetra.movecs
- spin, nalpha, nbeta: 1 100 0
------------------------------------------------------------------------

cpsi_data_alloc: out of heap memory                   0

------------------------------------------------------------------------

------------------------------------------------------------------------

 current input line :

   79: task band energy

------------------------------------------------------------------------

------------------------------------------------------------------------

------------------------------------------------------------------------

For more information see the NWChem manual at http://www.nwchem-sw.org/index.php/NWChem_Documentation




For further details see manual section:
0:0:cpsi_data_alloc: out of heap memory:: -1
(rank:0 hostname:cnode0009 pid:166397):ARMCI DASSERT fail. ../../ga-5-4/armci/src/common/armci.c:ARMCI_Error():208 cond:0
cpsi_data_alloc: out of heap memory                   0

------------------------------------------------------------------------

------------------------------------------------------------------------

 current input line :

cpsi_data_alloc: out of heap memory                   0


AND SO ON...

Just Got Here
Threads 3
Posts 4
7:02:12 PM PDT - Fri, Mar 31st 2017
Quote:Alankar86 Nov 23rd 11:35 am
Hello

I'm trying to to do band structure and density of state calculation of a tetragonal and cubic methyl ammonium lead iodide pervoskite, however for the tetragonal case, the output file gets terminated with repeating the error message. Any HELP provided is appreciated. THANKS

"cpsi_data_alloc: out of heap memory 0
------------------------------------------------------------------------

------------------------------------------------------------------------"
"15:15:cpsi_data_alloc: out of heap memory:: -1"


and finally getting terminated due to MPI abort being called.

I've tried many options to change the memory to the following but nothing worked:
1. memory 5000 mb
2. memory stack 3000 heap 1000 global 4000 mb
3. memory stack 2000 heap 100 global 1000 mb


However, the cubic structure case worked which in syntax (of the input file) was almost the same as both of them were inspired from the Diamond case tutorial for NWPW module of the NwChem.

[1]

I'm printing the output here of my input and output file respectively, since I can't find a way to attach them.

INPUT FILE:
echo
title "Lead Halide density of states calculation - Tetra"

memory 5000 mb

permanent_dir ./perm
scratch_dir ./scratch

start MAPbI3_tetra

geometry units angstroms center noautosym noautoz print
 system crystal

   lat_a 8.80000

   lat_b 8.80000

   lat_c 13.04750

   alpha 90.0

   beta  90.0

   gamma 90.0

 end

 symmetry P1

  C 0.028889      0.498316      0.250011

  C 0.531322      0.044999      0.249675

  C 0.044514      0.531832      0.748937

  C 0.498468      0.029432      0.750303

  N 0.926591      0.607350      0.195325

  N 0.428627      0.934084      0.198269

  N 0.934870      0.427511      0.697795

  N 0.606721      0.925884      0.695663

  H 0.651038      0.019289      0.227602

  H 0.516462      0.034554      0.334552

  H 0.501165      0.161493      0.223504

  H 0.453377      0.820754      0.219854

  H 0.440134      0.940659      0.117586

  H 0.312688      0.954669      0.216077

  H 0.936567      0.595452      0.114920

  H 0.953006      0.721459      0.212869

  H 0.810747      0.588889      0.214753

  H 0.148541      0.521347      0.226310

  H 0.997358      0.380706      0.228312

  H 0.015176      0.513549      0.334521

  H 0.953958      0.312643      0.718385

  H 0.945278      0.434463      0.617067

  H 0.820592      0.453878      0.716847

  H 0.162112      0.499909      0.725454

  H 0.030585      0.521128      0.833868

  H 0.020385      0.650267      0.723900

  H 0.721407      0.952766      0.711765

  H 0.593071      0.933366      0.615307

  H 0.588673      0.810832      0.716517

  H 0.521116      0.148133      0.725000

  H 0.515300      0.018068      0.834771

  H 0.380163      0.997370      0.730204

  Pb 0.509286      0.516734      0.988866

  Pb 0.517719      0.510297      0.488850

  Pb 0.030196      0.012069      0.489596

  Pb 0.010775      0.029892      0.989478

  I 0.703078      0.830381      0.994907

  I 0.324408      0.209077      0.997609

  I 0.207564      0.720815      0.998622

  I 0.830325      0.343607      0.989663

  I 0.343690      0.830181      0.490048

  I 0.720806      0.208628      0.499656

  I 0.831058      0.704858      0.494891

  I 0.209145      0.325347      0.496711

  I 0.523962      0.532514      0.239892

  I 0.532714      0.523880      0.739874

  I 0.005635      0.022809      0.741702

  I 0.022736      0.005856      0.241710
end

nwpw
 ewald_rcut 3.0

 ewald_ncut 8

 lmbfgs

 xc pbe96

 np_dimensions -1 -1 4

 monkhorst-pack 8 8 10
end
task band energy

set dos:npoints 1000
nwpw
  virtual 40

  dos-grid 10 10 10
end
task band dos

OUTPUT FILE
 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

         **********************************************************

         *                                                        *

         *                   NWPW BAND Calculation                *

         *                                                        *

         *  [(bundled Grassmann/Stiefel manifold implementation)] *

         *                                                        *

         *         [ NorthWest Chemistry implementation ]         *

         *                                                        *

         *                version #1.10   01/31/03                *

         *                                                        *

         *  A pseudopotential plane-wave band structure program   *

         *  with Brillouin zone sampling for optimizing crystals, *

         *  slabs, and polymers.  Developed by Eric J. Bylaska    *

         *  , Edoardo Apra, and Patrick Nichols.                  *

         *                                                        *

         **********************************************************

    >>>  JOB STARTED       AT Sat Nov 12 03:34:48 2016  <<<

         ================ input data ========================
 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for C



Generated formatted_filename: ./perm/C.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for N



Generated formatted_filename: ./perm/N.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for H



Generated formatted_filename: ./perm/H.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for Pb



Generated formatted_filename: ./perm/Pb.cpp

 library name resolved from: compiled reference

 NWCHEM_NWPW_LIBRARY set to: </apps/chpc/chem/nwchem/6.6/src/nwpw/libraryps/>

Generating 1d pseudopotential for I



Generated formatted_filename: ./perm/I.cpp

random planewave guess, initial psi:MAPbI3_tetra.movecs
- spin, nalpha, nbeta: 1 100 0
------------------------------------------------------------------------

cpsi_data_alloc: out of heap memory                   0

------------------------------------------------------------------------

------------------------------------------------------------------------

 current input line :

   79: task band energy

------------------------------------------------------------------------

------------------------------------------------------------------------

------------------------------------------------------------------------

For more information see the NWChem manual at http://www.nwchem-sw.org/index.php/NWChem_Documentation




For further details see manual section:
0:0:cpsi_data_alloc: out of heap memory:: -1
(rank:0 hostname:cnode0009 pid:166397):ARMCI DASSERT fail. ../../ga-5-4/armci/src/common/armci.c:ARMCI_Error():208 cond:0
cpsi_data_alloc: out of heap memory                   0

------------------------------------------------------------------------

------------------------------------------------------------------------

 current input line :

cpsi_data_alloc: out of heap memory                   0


AND SO ON...



I had the same problem. To solve this issue, either delete your old permanent and temporary files or change the analysis title.


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