Author Topic: Error message  (Read 3533 times)

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Offline Inaoton

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Error message
« on: May 8, 2018, 15:10 »
Hello
After one running the script for 39 minutes, I got this error. What is this error for?


Traceback (most recent call last):
  File "4x4x4 supercell-270Ha-band-toten.py", line 925, in <module>
    bulk_configuration.update()
  File "zipdir/NL/CommonConcepts/Configurations/AtomicConfiguration.py", line 1675, in update
  File "zipdir/NL/Calculators/Interfaces/BulkCalculatorInterface.py", line 273, in _update
  File "zipdir/NL/Calculators/DensityFunctionalTheory/LCAOCalculator/LCAOCalculator.py", line 1340, in scfLoop
  File "zipdir/NL/Calculators/DensityFunctionalTheory/LCAOCalculator/SCFLoop.py", line 263, in scfLoopHamiltonian
  File "zipdir/NL/ComputerScienceUtilities/Flowchart.py", line 660, in execute
  File "zipdir/NL/ComputerScienceUtilities/Flowchart.py", line 652, in executeBlock
  File "zipdir/NL/Calculators/Blocks/Checkpoint.py", line 43, in execute
  File "zipdir/NL/Calculators/GenericParameters/CheckpointHandler.py", line 238, in _storeIfNecessary
  File "zipdir/NL/ComputerScienceUtilities/ParallelTools/ParallelTools.py", line 1104, in wrapper
  File "zipdir/NL/IO/HDF5.py", line 387, in _repack
OSError: [Errno 2] No such file or directory

Timing:                          Total     Per Step        %

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

Diagonalization         :    1324.93 s     662.47 s      55.87% |=============|
Real Space Integral     :     504.21 s     168.07 s      21.26% |====|
Difference Density      :     185.20 s      37.04 s       7.81% |=|
Exchange-Correlation    :     100.71 s      33.57 s       4.25% ||
Neutral Atom Potential  :      90.58 s      90.58 s       3.82% ||
Real Space Basis        :      83.13 s      83.13 s       3.51% ||
Valence Density         :      42.05 s      14.02 s       1.77% |
Constant Terms          :      21.33 s      21.33 s       0.90% |
Hartree Potential       :       6.83 s       2.28 s       0.29% |
Core Density            :       2.99 s       2.99 s       0.13% |
Loading Modules + MPI   :       1.46 s       1.46 s       0.06% |
Mixing                  :       0.21 s       0.11 s       0.01% |
Basis Set Generation    :       0.06 s       0.06 s       0.00% |
Setting Density Matrix  :       0.02 s       0.02 s       0.00% |
Hubbard Term            :       0.00 s       0.00 s       0.00% |
Fixed Spins Term        :       0.00 s       0.00 s       0.00% |
--------------------------------------------------------------------------------
Total                   :    2371.58 s (39m31.58s)

** Back Engine Exception : PETSc error 270090288 of type 1 in Real_PetscCommDestroy:231: 
** Location of Exception : petsc_impl.h:90

Offline Ulrik G. Vej-Hansen

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Re: Error message
« Reply #1 on: May 8, 2018, 15:17 »
It looks like it is trying to write the checkpoint file, but fails. Could it be that you do not have write permission for the temp-folder?

For better troubleshooting, please provide the script and the full log-file, if possible.

Offline Anders Blom

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Re: Error message
« Reply #2 on: May 8, 2018, 18:32 »
The checkpoint file should have extension .hdf5 (or .nc for older versions of ATK), yours is missing that.
Not sure that 100% is the problem, but at least it's something to check