星盈超级刀片计算机和生物信息学应用

20041120(CrayResearch)(Dr.SteveChen)1321I/O22.8GHzP4XeonCPU2GB36GBNFS22TB100Mb1000Mb20GbpsInfiniBandMPP1/RedHatLinuxAS3.1SSI-xCatGangliaWebCPUI/OTorque/MauiTorque(Tera-scaleOpen-sourceResourceandQUEuemanager)OpenPBSCPUCPUMauiFair-share128CPU12CPUIntelDevelopmentSuitev8.0IntelCPUC/C++Fortran77Fortran90GNULinuxUnixC/C++Fortran77MPIMPIMPIoverInfiniBandLAMTCP/IPMPICH1.2.5.2MPIoverInfiniBandLAMMPICHMPIrshsshRshrshNFSNFShome/usr/localNISNIS+1SMPIMPIPVMPVM()Motif1/NCBIBLASTv2.2.10NCBIblastall,blastpgp,bl2seq,blastclust,formatdb,megablast,rpsblastSmpiBLASTv1.2.1NCBIBLASTMPImpiBLASTBLASTBLASTMPIWebBlast/mpiBlastNCBIBlastmpiBlastwebWBLATv3.1BLATmRNA/DNABLATmRNA/DNA50050S/Wsim42002-03-03DNA(EST,cDNA,mRNA)SFastAv3.4DNAMPImp34compS/MPIHMMERv2.3.2PVMS/PVMPhred(v0.020425)Phrap(v0.990319)Consed(v13.0)PhredPhrapPhredConsedSRepeatmaskerv2002-07-13ScreensDNAsequencesforinterspersedrepeatsandlowcomplexityDNAsequences.SCap3EstSEstAlign1.0BlatSim4SPaCE2.5Est,EstS/MPIBlastclust2.2.10NCBIBLASTSNAMD2.5CPUMPIGromacs3.2.1S/MPIMPQC2.2.2SchroedingerMPIDOCK5.1.1MPIS/MPIEMBOSSv2.9.0EMBOSSSWebCPU12005-01-0910:46268CPU400130%CPU90%22005-01-032005-01-093003host100CPU320056zhangcg36412769.94CPU11234blastblastNCBIblast2.2.10mpiblast4413.1GBncbiblastall2CPUmpiformatdbnt6448MBmpiblast48162mpiblastncbiblastallmpiblast4/mpiblast8/mpiblast16/nt50.29.795.12:14.3811.46:12.3221.64:1441nt21219.82398.18.85:11236.317.2:1667.231.8:1ntncbiblastI/OCPUmpiblastntI/OCPU99%mpiblastmpiblastncbiblastnt4mpiblast1ncbiblastall4.127.85mpiblastBlatEstAlignESTmRNA/cDNA56Blat7.5UniGeneESTCPUPC3blastpgp316PC68PC30%Linux