Escali manual Scali MPI Connect Release 4.4 Users Guide

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Scali MPI Connect Release 4.4 Users Guide

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Contents Scali MPI ConnectTM Users Guide Copyright 1999-2005 Scali AS. All rights reserved AcknowledgementScali Bronze Software Certificate Maintenance II Software License Terms CommencementGrant of License Export Requirements SupportLicense Manager Sub-license and distributionLICENSEE’s Obligations SCALI’s ObligationsTransfer Title to Intellectual Property RightsCompliance with Licenses Warranty of Title and Substantial PerformanceScali MPI Connect Release 4.4 Users Guide Vii Limitation on Remedies and LiabilitiesMiscellaneous Proprietary InformationGoverning Law Scali MPI Connect Release 4.4 Users Guide Table of contents Profiling with Scali MPI Connect Appendix a Example MPI code Scali MPI Connect Release 4.4 Users Guide Scali MPI Connect product context ChapterPlatforms supported Scali mailing lists SMC FAQ SMC release documentsProblem reports SupportFeedback How to read this guideAcronyms and abbreviations LicensingNIC Terms and conventions Typographic conventionsGUI style font Typographic conventions Scali MPI Connect components Description of Scali MPI ConnectSMC network devices Ethernet Devices Direct Access Transport DATNetwork devices Shared Memory DeviceUsing detctl Using detstat3.2 DET 5.1 IB MyrinetInfiniband 4.1 GMCommunication protocols on DAT-devices 6 SCIChannel buffer Inlining protocol Eagerbuffering protocolTransporter protocol MPI-2 Features Support for other interconnectsZerocopy protocol Scali MPI Connect Release 4.4 Users Guide MPI-2 Features Running Setting up a Scali MPI Connect environmentCompiling and linking Scali MPI Connect environment variablesLinker flags Compiler supportNaming conventions Running Scali MPI Connect programsMpimon monitor program Basic usageIdentity of parallel processes Program spec Controlling options to mpimonStandard input Standard outputNetwork options How to provide options to mpimonMpirun usage Mpirun wrapper scriptPart part Running with tcp error detection TfdrSuspending and resuming jobs Running with dynamic interconnect failover capabilitiesDebugging with a sequential debugger Debugging and profilingDebugging with Etnus Totalview Using built-in segment protect violation handlerBuilt-in-tools for debugging Assistance for external profilingControlling communication resources Communication resources on DAT-devicesChannelinlinethreshold size to set threshold for inlining Matching MPIRecv with MPIProbe Using MPIIsend, MPIIrecvUsing MPIBsend Good programming practice with SMCUnsafe MPI programs Error and warning messagesUser interface errors and warnings Fatal errorsMpimon options Giving numeric values to mpimon PrefixPostfix Scali MPI Connect Release 4.4 Users Guide Example Profiling with Scali MPI ConnectTracing Using Scali MPI Connect built-in trace+relSecs S eTime where AbsRank MPIcallcommNamerankcall-dependant-parameters whereExample FeaturesTiming Using Scali MPI Connect built-in timingMPIcallDcallsDtimeDfreq TcallsTtimeTfreq Count!avrLen!zroLen!inline!eager!transporter! where Using the scanalyzeCommrank recv from fromworldFromcommonFields Commrank send to toworldTocommonFields whereFor timing This produces the following report Using SMCs built-in CPU-usage functionalityScali MPI Connect Release 4.4 Users Guide Automatic buffer management Tuning communication resourcesFirst iteration is very slow How to optimize MPI performanceBenchmarking Caching the application program on the nodesMemory consumption increase after warm-up Collective operationsFinding the best algorithm Appendix a Programs in the ScaMPItst packageImage contrast enhancement Scali MPI Connect Release 4.4 Users Guide Original File formatWhen things do not work troubleshooting Why does not my program start to run?Appendix B Why can I not start mpid? Why does my program terminate abnormally?General problems Appendix C Per node installation of Scali MPI ConnectExample Install Scali MPI Connect for TCP/IPInstall Scali MPI Connect for Direct Ethernet Install Scali MPI Connect for MyrinetLicense options Install Scali MPI Connect for InfinibandInstall Scali MPI Connect for SCI Install and configure SCI management softwareUninstalling SMC Troubleshooting Network providersScali kernel drivers Troubleshooting the GM provider Troubleshooting 3rdparty DAT providersScali MPI Connect Release 4.4 Users Guide Appendix D Bracket expansion and grouping Bracket expansionGrouping Scali MPI Connect Release 4.4 Users Guide Related documentation Appendix EScali MPI Connect Release 4.4 Users Guide List of figures Scali MPI Connect Release 4.4 Users Guide Transporter protocol IndexSSP