Escali 4.4 manual List of figures

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List of figures

1-1	A cluster system	5
2-1 The way from application startup to execution		11
2-2 Scali MPI Connect relies on DAT to interface to a number of interconnects		12
2-3	Thresholds for different communication protocol	16
2-4	Resources and communication concepts in Scali MPI Connect	17
3-1	/opt/scali/bin/mpirun -debugall ./kollektive-8 ./ultrasound_fetus-256x256-8.pgm ...	29

Scali MPI Connect Release 4.4 Users Guide

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Contents Scali MPI ConnectTM Users Guide Acknowledgement Copyright 1999-2005 Scali AS. All rights reservedScali Bronze Software Certificate Maintenance II Software License Terms CommencementGrant of License Sub-license and distribution SupportLicense Manager Export RequirementsSCALI’s Obligations LICENSEE’s ObligationsTitle to Intellectual Property Rights TransferWarranty of Title and Substantial Performance Compliance with LicensesLimitation on Remedies and Liabilities Scali MPI Connect Release 4.4 Users Guide ViiProprietary Information MiscellaneousGoverning 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 Chapter Scali MPI Connect product contextSupport Scali mailing lists SMC FAQ SMC release documentsProblem reports Platforms supportedLicensing How to read this guideAcronyms and abbreviations FeedbackNIC Terms and conventions Typographic conventionsGUI style font Typographic conventions Description of Scali MPI Connect Scali MPI Connect componentsSMC network devices Shared Memory Device Direct Access Transport DATNetwork devices Ethernet DevicesUsing detctl Using detstat3.2 DET 4.1 GM MyrinetInfiniband 5.1 IBCommunication 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 Scali MPI Connect environment variables Setting up a Scali MPI Connect environmentCompiling and linking RunningCompiler support Linker flagsRunning Scali MPI Connect programs Naming conventionsMpimon monitor program Basic usageIdentity of parallel processes Standard output Controlling options to mpimonStandard input Program specHow to provide options to mpimon Network optionsMpirun wrapper script Mpirun usageRunning with dynamic interconnect failover capabilities Running with tcp error detection TfdrSuspending and resuming jobs Part partDebugging and profiling Debugging with a sequential debuggerAssistance for external profiling Using built-in segment protect violation handlerBuilt-in-tools for debugging Debugging with Etnus TotalviewControlling communication resources Communication resources on DAT-devicesChannelinlinethreshold size to set threshold for inlining Good programming practice with SMC Using MPIIsend, MPIIrecvUsing MPIBsend Matching MPIRecv with MPIProbeFatal errors Error and warning messagesUser interface errors and warnings Unsafe MPI programsMpimon options Giving numeric values to mpimon PrefixPostfix Scali MPI Connect Release 4.4 Users Guide Profiling with Scali MPI Connect ExampleUsing Scali MPI Connect built-in trace TracingAbsRank MPIcallcommNamerankcall-dependant-parameters where +relSecs S eTime whereFeatures ExampleUsing Scali MPI Connect built-in timing TimingMPIcallDcallsDtimeDfreq TcallsTtimeTfreq Commrank send to toworldTocommonFields where Using the scanalyzeCommrank recv from fromworldFromcommonFields Count!avrLen!zroLen!inline!eager!transporter! whereFor timing Using SMCs built-in CPU-usage functionality This produces the following reportScali MPI Connect Release 4.4 Users Guide Tuning communication resources Automatic buffer managementCaching the application program on the nodes How to optimize MPI performanceBenchmarking First iteration is very slowCollective operations Memory consumption increase after warm-upFinding the best algorithm Appendix a Programs in the ScaMPItst packageImage contrast enhancement Scali MPI Connect Release 4.4 Users Guide File format OriginalWhen 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 Per node installation of Scali MPI Connect Appendix CInstall Scali MPI Connect for Myrinet Install Scali MPI Connect for TCP/IPInstall Scali MPI Connect for Direct Ethernet ExampleInstall and configure SCI management software Install Scali MPI Connect for InfinibandInstall Scali MPI Connect for SCI License optionsUninstalling SMC Troubleshooting Network providersScali kernel drivers Troubleshooting 3rdparty DAT providers Troubleshooting the GM providerScali MPI Connect Release 4.4 Users Guide Appendix D Bracket expansion and grouping Bracket expansionGrouping Scali MPI Connect Release 4.4 Users Guide Appendix E Related documentationScali MPI Connect Release 4.4 Users Guide List of figures Scali MPI Connect Release 4.4 Users Guide Index Transporter protocolSSP