1 / 25

Trilinos 101: Getting Started with Trilinos

Trilinos 101: Getting Started with Trilinos. November 7, 2006 8:30-9:30 a.m. Mike Heroux Jim Willenbring. Overview. Trilinos Web Page Obtaining Trilinos Tools for Users Mailman Bugzilla Configuring General configure options Platform and machine specific configure options

Download Presentation

Trilinos 101: Getting Started with Trilinos

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript


  1. Trilinos 101: Getting Started with Trilinos November 7, 2006 8:30-9:30 a.m. Mike Heroux Jim Willenbring

  2. Overview • Trilinos Web Page • Obtaining Trilinos • Tools for Users • Mailman • Bugzilla • Configuring • General configure options • Platform and machine specific configure options • Troubleshooting • Building and Installing • Testing • Improving Efficiency (of the build process) • Linking to Trilinos Libraries

  3. The Trilinos Home Page http://software.sandia.gov/trilinos/ • Highlights of the web page • Download page • User documentation • Getting started page • Installation guide • User guide • FAQ • Individual package documentation • ‘runtests’ make target documentation • External package capability

  4. Obtaining Trilinos • Instructions for obtaining Trilinos are available in • the Trilinos User Guide http://software.sandia.gov/trilinos/publications.html • the Installation Guide http://software.sandia.gov/trilinos/installation_manual.html • Download from the website http://software.sandia.gov/trilinos/downloads.html • Obtain a copy from the CVS repository • Not available for all users

  5. Tools for Users • Mailman • Users are encouraged to sign up for • Users lists for Trilinos and individual packages of interest • Announce lists for Trilinos and individual packages of interest • See http://software.sandia.gov/mailman/listinfo for the complete list of mail lists • For general questions trilinos-help@software.sandia.gov

  6. Tools for Users (cont.) • Bugzilla http://software.sandia.gov/bugzilla/ • Issue tracking tool • An account is required to file a “bug” • Can be used to report bugs or request new features • Please provide as much detail as possible (For example: Platform, OS, compiler versions, configure options, version of Trilinos, etc.)

  7. Configuring Trilinos • Find an in depth discussion in the Trilinos User Guide http://software.sandia.gov/trilinos/trilinosUserGuide.pdf • Trilinos Installation manual http://software.sandia.gov/trilinos/installation_manual.html

  8. Configuring Trilinos (cont.) • Trilinos uses Autoconf and Automake • Don’t just try “configure, make, make install” • Most platforms need more options • Even if the build is successful, the default set of packages and options probably will not suit your needs • If you don’t want to build everything, then don’t • Takes a long time to configure and build • Run into problems while building a package that is not needed

  9. Configuring Trilinos (cont.) • To see all Trilinos options type • ./configure --help=recursive • General Configure options • Determine which Trilinos packages should be built (--enable-<package_name>) • Consider using --disable-default-packages • Serial or MPI?

  10. Configuring Trilinos (cont.) • Platform and machine specific options • Common options online http://software.sandia.gov/trilinos/configuration_manual.html • Example configure invocation scripts • Examples only – customizations will be necessary • Can be found in the Trilinos directory structure in the Trilinos/sampleScripts/directory • For example redstorm_mpi_reddish1 • Users are encouraged to submit their scripts

  11. Configuring Trilinos (cont.) • Example invoke configure file for reddish: module load PrgEnv-pgimodule load mpich../configure --enable-mpi \CXX=mpicxx CC=mpicc F77=mpif77 \CPPFLAGS="-tp k8-64 -lacml -lpgmp -lpgthread" \--with-blas="-L/usr/pgi-6.0/linux86-64/6.0/lib -lacml -lpgmp -lpgthread" \--with-lapack="-L/usr/pgi-6.0/linux86-64/6.0/lib -lacml" \--enable-ml \--disable-default-packages#The lines before ../configure load the proper environment

  12. Configuring Trilinos (cont.) • Platform and machine specific options module load PrgEnv-pgimodule load mpich../configure --enable-mpi \CXX=mpicxx CC=mpicc F77=mpif77 \CPPFLAGS="-tp k8-64 -lacml -lpgmp -lpgthread" \--with-blas="-L/usr/pgi-6.0/linux86-64/6.0/lib -lacml -lpgmp -lpgthread" \--with-lapack="-L/usr/pgi-6.0/linux86-64/6.0/lib -lacml" \--enable-ml \--disable-default-packages

  13. Configuring Trilinos (cont.) • Troubleshooting • Most errors are due to system configurations • Look for errors in the invoke-configure • Autoconf is not able to detect spelling errors. • Line continuation problems (ex --enable-mpi \) • Look at the correct config.log file (created at configure time) • Default error output is very, very poor – often misleading • The config.log at the Trilinos level is not the correct config.log file. Go to the package level config.log file. For example: configure: error: /bin/sh '../../../packages/epetra/configure' failed for packages/epetra indicates that one should look at packages/epetra/config.log

  14. Troubleshooting using config.log • The config.log file is very long • To find what you need, search for the string “Cache” ## ------------------------ ## ## Cache variables. ## ## ----------------------- ## • The error that caused the configure failure can be found above this point, but typically not directly above

  15. Working Through a config.log File • Here is a common configure error • error: Cannot find lapack library, specify a path using --with-ldflags=-I<DIR> (ex. --with-dlflags=-I/usr/path/lib) or a specific library using --with-lapack=DIR/LIB (ex. --with-lapack=/usr/path/lib/libcxml.a) • Look for last successful configure check • In this case it would be a BLAS check • Directly beneath that check will be the failed check • Could be • Missing library (undefined symbol) • Incorrect path • ??

  16. Building and Installing Trilinos • To build Trilinos type make • To install Trilinos type make install

  17. Testing • Tests can be run individually after compilation • ‘runtests’ make targets http://software.sandia.gov/trilinos/developer/test_harness/runtests_make_target.html • To run the test suite (the tool will only attempt to run tests that were built), after "make“, type make runtests-serial • Can run tests for individual packages

  18. Testing • ‘runtests’ make targets • For MPI use make runtests-mpi • Must specify TRILINOS_MPI_GO in the environment or as an argument to make make runtests-mpi TRILINOS_MPI_GO="'mpiexec -np 2'" • Trilinos/commonTools/test/utilities/runtests –help • Installation Tests • Make a good “linking” test • <prefix>/examples • Not all of these work yet

  19. Improving Efficiency • All of these techniques are discussed in the Trilinos User Guide • Build only the packages that are needed • After Trilinos has been ported to a machine • --disable-tests --disable-examples ---disable-libcheck • Cannot use --disable-libcheck with makefile.export • make –j n • n is the number of jobs to create • Not supported by all versions of “make” • --cache-file=config.cache • Be sure to blow away if errors occur • Can put removal command in invoke-configure

  20. Linking to Trilinos Libraries • Makefile.export system makes linking easy • Files created in the include directory during install • Makefile.export.<package_name> files • Useful macros <PACKAGE_NAME>_INCLUDES <PACKAGE_NAME>_LIBS • Makefile.export.<package_name>.macros files • More macros including <PACKAGE_NAME>_CXXFLAGS <PACKAGE_NAME>_CXX • Use the macros in application makefiles

  21. Linking to Trilinos Libraries • Example: TRILINOS_PREFIX=/common/Trilinos/7.0.2 include $(TRILINOS_PREFIX)/include/Makefile.export.epetra.macros include $(TRILINOS_PREFIX)/include/Makefile.export.epetra INCDIR=$(EPETRA_INCLUDES) LIBDIR=$(EPETRA_LIBS) CXXFLAGS=$(INCDIR) $(EPETRA_CXXFLAGS) $(EPETRA_DEFS) CXX= $(EPETRA_CXX) • Typically must include several Makefile.export files

  22. Common Pitfalls • --with-gnumake • Compiler/library version mismatches • __gxx__personality • gfortran or g77 • Upgrading system and not recompiling 3PL’s • Linking to BLAS/LAPACK • Typo’s in configure arguments

  23. Where to Find Help • Getting started link http://software.sandia.gov/trilinos/getting_started.html • Help link from Trilinos home page http://software.sandia.gov/Trilinos/help.html • Online FAQ section http://software.sandia.gov/trilinos/faq.html • Trilinos User Guide http://software.sandia.gov/trilinos/publications.html

  24. Where to Find Help (cont.) • Submitting a bug report • Please provide as much detail as possible • Attach the appropriate config.log http://software.sandia.gov/trilinos/bug_reports.html • For general questions trilinos-help@software.sandia.gov • Trilinos Home Page http://software.sandia.gov/trilinos

  25. Discussion • Questions, comments?

More Related