?????????(HPC)

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???????
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• ?????????(HPC)
• 1.????
• 2.???
• 3.????

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• ???????????
• 1. ?CPU??????(SGI Altix 3000)
• 2. ??(cluster)??(??????)
• ????
• Unix, Linux, Windows
• ??????
• MPI, OpenMP

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SGI Altix 3700????
? ???? 1.C brick 32?1.3GHz/3M Intel Itanium2
cpu 2. M brick 32G?? 3. R brick?? 4. IX
brick??/?? 5. D brick ????(??1T??)
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? ????

• NUMAflex?????????
• ????????, ????
• ??????????????
• ??
• ??????????
• ????????
• ??HPC????????
• ????

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????

• ????64?Linux Advanced Server SGI HPC ProPack
• ???Intel C, C, Fortran , Math Kernel Library

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MPI ??
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OpenMP ??
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????

• SGI HPC ???????
• SGI MPT (Message Passing Toolkit)
• ???MPI ?SHMEM ?????
• MPT ????????????SSI???, ??????????
• SGI NUMA???
• ????cpu???????? cpuset, memset, dplace
• SGI ????(Array Services)
• ??????????, ????????????
• SGI Performance Co-Pilot ??????????
• SGI FFIO ???I/O ?????
• SGI ?????SCSL

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??????

• ? ????
• ?windows?????
• 1. ??xmanager?????xwindows?????
• 2. ??ssh-client??????
• ?Linux???????ssh ????

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• ???????
• ?windows?????
• ??ssh-client???sftp??
• ?Linux???????sftp ??

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• Linux ????
• whoami \gt lists your login
  name
• ls \gt lists
  filenames in working directory
• ls -l \gt same list
  with additional information
• ls -l more \gt if list too long
  page down with
• space bar
• cp file1 file2 \gt copies file1 to
  file2 (NB exists
• already?)
• mv file3 file4 \gt file3 is renamed
  file4
• rm file1 \gt discards file1.
  Clean up from time
• to time.
• mkdir dir1 \gt creates new
  directory with name
• dir1
  
• mv file2 dir1/file2 \gt moves file2 to
  directory dir1
• mv file2 dir1/ \gt does precisely the
  same

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• cd dir1 \gt change working directory
  to dir1
• cd .. \gt go back (one branch down
  the tree)
• rmdir dir1 \gt discard dir1 (works only
  when empty)
• pwd \gt lists path to working
  directory
• ps -ef \gt list of activities of
  computer
• ps -ef more \gt if list is too long
  
• efc -O2 prog.f -o prog \gt see file
  'Howto.txt' for details
• proggtoutput1 \gt run program
  prog output in file
  
• 
  output1'
• progltinput2gtoutput1 \gt the same using input
  file
• 
  named input2'
• progltinput2gtoutput1 \gt the same in
  background'
• control-c \gt if cursor
  does not return kill task

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• ??????
• 1.how to compile a fortran program?
• efc -O2 tpp2 yourprog.f -o yourprog.out
• 2. how to compile a C program?
• ecc -O2 -tpp2 yourprog.c -o yourprog.out

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• ??????
• 1. openmp paralleled fortran program
• efc -O2 -tpp2 -fpp -openmp yourprog.f -o
  yourprog.out
• 2 .mpi paralleled fortran program
• efc -O2 -tpp2 yourprog.f -o yourprog.out -lmpi
• 3. openmp paralleled C program
• ecc -O2 -tpp2 -openmp yourprog.c -o
  yourporg.out

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• ?????????OPENMP????
• 1. without input
• ./yourprog.out or ./yourprog.out
• 2. with input file
• ./yourprog.outltinput
• ??????MPI????
• mpirun -np 8 yourprog.outltinput
• ??????
• ./yourprog.outltinputgtoutputfile
• ???????????
• Top or ps -efgrep
  yourlogname

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????

• ??PBS pro???????????????,????????????
• ??1.??????????????
• 2.????????????
• 3. ?????????????
• 4. ?????????
• ????qmgr,qstart,qstop
• ????qstat,qsub,qdel

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???????

• ????????,??????????????,??, job_sample

PBS -N small PBS l walltime16000,mem100mb,n
cpus4 PBS -m be mpirun -np 4 /home/wenan/mc2do3/
mpimc2do3q.outlt/home/wenan/mc2do3/inputmpigtgt/home/
wenan/mc2do3/outmpi this sample for a mpi
program
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• ??
• qsub job_sample q big
• ??job_sample?????,big???????????

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• ??????
• qstat q ?????????
• qstat a ????????????

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