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QuantumATK => General Questions and Answers => Topic started by: naash on May 4, 2011, 06:00

Title: optimization pbs output file what does it mean
Post by: naash on May 4, 2011, 06:00

Numbers of Processors:  16
---------------------------
started mpd Number: 4
---------------------------
Traceback (most recent call last):
  File "./zipdir/NL/Calculators/DeviceCalculatorInterface.py", line 279, in _update
  File "./zipdir/NL/Calculators/LCAOCalculator/DeviceLCAOCalculator.py", line 1581, in scfLoopDevice
  File "./zipdir/NL/Calculators/LCAOCalculator/DeviceLCAOCalculator.py", line 823, in scfLoopDeviceHamiltonian
  File "./zipdir/NL/Calculators/GenericParameters/CheckpointHandler.py", line 129, in _storeIfNecessary
  File "./zipdir/NL/IO/NetCDFFile.py", line 194, in flush
  File "./zipdir/NL/IO/NetCDFFile.py", line 207, in _write
  File "./zipdir/NL/IO/NetCDFFile.py", line 267, in _write_var_array
  File "./zipdir/NL/IO/NetCDFFile.py", line 315, in _write_var_data
IOError: [Errno 28] No space left on device
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Barrier(82)..................:
MPIC_Sendrecv(164)................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_recv_handler(1446)...: socket closed
Fatal error in PMPI_Barrier: Other MPI error, error stack:
PMPI_Barrier(476).................: MPI_Barrier(MPI_COMM_WORLD) failed
MPIR_Bcast(1031)..................:
MPIR_Bcast_binomial(157)..........:
MPIC_Recv(83).....................:
MPIC_Wait(513)....................:
MPIDI_CH3I_Progress(150)..........:
MPID_nem_mpich2_blocking_recv(948):
MPID_nem_tcp_connpoll(1720).......:
state_commrdy_handler(1556).......:
MPID_nem_tcp_

Title: Re: optimization pbs output file what does it mean
Post by: zh on May 4, 2011, 14:21

Please see the similar problems and solution reported in the following webpages:
http://forums.sabnzbd.org/index.php?topic=5520.0
http://www.vlent.nl/weblog/2009/05/27/ioerror-errno-28-no-space-left-on-device/

Change the setup in your script file: you had better specify the path of the checkpoint file as your work directory, rather than the path for the temporary files of your system.