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naigner

micelle error

Nov 14th, 2011
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  1. ompi /work/sge/default/spool/r11n34/active_jobs/1045663.1/pe_hostfile 8 1 /home/lv70190/aigner
  2. r11n34 8 all.q@r11n34 UNDEFINED
  3. r11n34:0.env PSM_TRACEMASK Mask flags for tracing => 0x1
  4. r11n34:0.env IPATH_DISABLE_MMAP_MALLOC Disable mmap for malloc() => NO
  5. r11n34:0.env PSM_NUM_SEND_BUFFERS Number of send buffers to allocate [1024] => 1024
  6. r11n34:0.env PSM_PKEY Infiniband PKey to use for endpoint => 65535
  7. r11n34:0.env PSM_IB_SERVICE_ID IB Service ID for path resolution => 1152940698815692800
  8. r11n34:0.env PSM_PATH_REC Mechanism to query IB path record (default is no path query) => none
  9. r11n34:0.env PSM_NUM_SEND_DESCRIPTORS Number of send descriptors to allocate [4096] => 4096
  10. r11n34:0.env PSM_SEND_IMMEDIATE_SIZE Immediate data send size not requiring a buffer [128] => 128
  11. r11n34:0.env IPATH_NO_CPUAFFINITY Prevent PSM from setting affinity => NO
  12. r11n34:0.env IPATH_UNIT Device Unit number (-1 autodetects) => -1
  13. r11n34:0.env IPATH_PORT IB Port number (<= 0 autodetects) => 0
  14. r11n34:0.env IPATH_SL IB outging ServiceLevel number (default 0) => 0
  15. r11n34:0.env PSM_DEVICES Ordered list of PSM-level devices => self,shm (default was self,shm,ipath)
  16. r11n34:0.env PSM_MEMORY Memory usage mode (normal or large) => normal
  17. r11n34:0.env *MPI_LOCALRANKID Shared context rankid => 0 (default was -1)
  18. r11n34:0.env PSM_MQ_SENDREQS_MAX Max num of isend requests in flight => 1048576
  19. r11n34:0.env PSM_MQ_RECVREQS_MAX Max num of irecv requests in flight => 1048576
  20. r11n34:0.env PSM_SHM_KCOPY PSM Shared Memory use kcopy (put,get,none) => put
  21. r11n34:0.env PSM_KASSIST_MODE PSM Shared memory kernel assist mode (knem-put, knem-get, kcopy-put, kcopy-get, none) => knem-put
  22. r11n34:0.env PSM_MQ_RNDV_IPATH_THRESH ipath eager-to-rendezvous switchover => 64000
  23. r11n34:0.env PSM_MQ_RNDV_SHM_THRESH shm eager-to-rendezvous switchover => 16000
  24. r11n34:0.env PSM_CONNECT_TIMEOUT End-point connection timeout over-ride. 0 for no time-out. => 0
  25. LAMMPS (9 Nov 2011)
  26. using 1 OpenMP thread(s) per MPI task
  27. Scanning data file ...
  28. 0 = max bonds/atom
  29. ERROR on proc 0: Needed topology not in data file (read_data.cpp:1298)
  30. r11n34:0.MPID_Abort: r11n34:0.MPI Abort by user Aborting program !
  31. r11n34:0.MPID_CH_Abort: r11n34:0.Aborting program!
  32. r11n34:0.env PSM_CLOSE_TIMEOUT End-point close timeout over-ride. => 0
  33.  
  34.  
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