Tpetra: replace serial search with unordered_map for inserting into dense rows #8794 #8804
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kddevin
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Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK.
kyungjoo-kim
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Mar 9, 2021
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Merge on Pull Request# 8804: IS A SUCCESS - Pull Request successfully merged |
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…s:develop' (8d5b058). * trilinos-develop: Intrepid2: UVM-free MonolothicExecutable Tests (trilinos#8852) Piro: add 'Optimizer Iteration Number' to Piro_ThyraProductME tpetra: trilinos#8794 trilinos#8804 test to pick threshold timed out in PR testing. Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK. Piro: move the Enable Explicit Matrix Transpose option to the app parameter list Piro: print response even for iteration 0 std: -> std:: Piro: print ROL headers Piro: Use observer to observe the response, the solution, and the parameters Piro: Add ThyraProductME_Constraint and Objective Tempus: Add Doxygen to SolutionHistory Functions. Piro: add the 'Enable Explicit Matrix Transpose' option to Piro_SteadyStateSolver_Def.hpp Tempus: Remove ParameterList from SolutionHistory tpetra: better test for PR trilinos#8804 for trilinos#8794; insert indices in batches with duplicates tpetra: bug fix in PR trilinos#8804 for trilinos#8794 next commit will have enhanced test tpetra: increase size of problem so that new code is actually triggered trilinos#8794 tpetra: added hash lookup when searching indices of dense rows trilinos#8794 tpetra: put test into Teuchos test harness trilinos#8794 tpetra: removed untested, unused function tpetra: added comments trilinos#8794 tpetra: small test to determine appropriate threshold for trilinos#8794 This will resolve trilinos#8756 by changing CXX_FLAGS
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…Manager * 'develop' of ssh://github.com/trilinos/Trilinos: (31 commits) Remove older and more complex buildAgainstTrilinos example (trilinos#8498) Update to point to demos/simpleBuildAgainstTrilinos (trilinos#8498) Add explicit COMPONENTS (trilinos#8498) Simpler one-directory build example using Trilinos (trilinos#8498) Intrepid2: UVM-free MonolothicExecutable Tests (trilinos#8852) Link to local INSTALL.rst on same branch (trilinos#8489) Update INSTALL.rst with link to demos/buildAgainstTrilinos (trilinos#8498) Eliminate duplication in tests and set PROCESSORS property (trilinos#8498) Modernize for newer CMake and fix compile error (trilinos#8498) Piro: add 'Optimizer Iteration Number' to Piro_ThyraProductME Tpetra: remove UVM dependence from test (trilinos#8830) tpetra: trilinos#8794 trilinos#8804 test to pick threshold timed out in PR testing. Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK. Correct gcc module loaded for tlcc2 builds MueLu: Add phase2a agg factor to param list for hybrid aggregation Piro: move the Enable Explicit Matrix Transpose option to the app parameter list Piro: print response even for iteration 0 Rythmos: Null-Test-Failing on Astra. Piro: print ROL headers Piro: Use observer to observe the response, the solution, and the parameters Piro: Add ThyraProductME_Constraint and Objective ...
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…s:develop' (8d5b058). * trilinos-develop: (27 commits) MiniEM: Enable reuse, test it Remove older and more complex buildAgainstTrilinos example (trilinos#8498) Update to point to demos/simpleBuildAgainstTrilinos (trilinos#8498) Add explicit COMPONENTS (trilinos#8498) Simpler one-directory build example using Trilinos (trilinos#8498) Intrepid2: UVM-free MonolothicExecutable Tests (trilinos#8852) Link to local INSTALL.rst on same branch (trilinos#8489) Update INSTALL.rst with link to demos/buildAgainstTrilinos (trilinos#8498) Eliminate duplication in tests and set PROCESSORS property (trilinos#8498) Modernize for newer CMake and fix compile error (trilinos#8498) Piro: add 'Optimizer Iteration Number' to Piro_ThyraProductME tpetra: trilinos#8794 trilinos#8804 test to pick threshold timed out in PR testing. Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK. Piro: move the Enable Explicit Matrix Transpose option to the app parameter list Piro: print response even for iteration 0 std: -> std:: Piro: print ROL headers Piro: Use observer to observe the response, the solution, and the parameters Piro: Add ThyraProductME_Constraint and Objective Tempus: Remove Doxygen dependence on algpseudocode. Tempus: Add Doxygen to SolutionHistory Functions. ...
jmgate
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Mar 12, 2021
…s:develop' (8d5b058). * trilinos-develop: (27 commits) MiniEM: Enable reuse, test it Remove older and more complex buildAgainstTrilinos example (trilinos#8498) Update to point to demos/simpleBuildAgainstTrilinos (trilinos#8498) Add explicit COMPONENTS (trilinos#8498) Simpler one-directory build example using Trilinos (trilinos#8498) Intrepid2: UVM-free MonolothicExecutable Tests (trilinos#8852) Link to local INSTALL.rst on same branch (trilinos#8489) Update INSTALL.rst with link to demos/buildAgainstTrilinos (trilinos#8498) Eliminate duplication in tests and set PROCESSORS property (trilinos#8498) Modernize for newer CMake and fix compile error (trilinos#8498) Piro: add 'Optimizer Iteration Number' to Piro_ThyraProductME tpetra: trilinos#8794 trilinos#8804 test to pick threshold timed out in PR testing. Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK. Piro: move the Enable Explicit Matrix Transpose option to the app parameter list Piro: print response even for iteration 0 std: -> std:: Piro: print ROL headers Piro: Use observer to observe the response, the solution, and the parameters Piro: Add ThyraProductME_Constraint and Objective Tempus: Remove Doxygen dependence on algpseudocode. Tempus: Add Doxygen to SolutionHistory Functions. ...
seamill
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…develop' (51336fe). * potential-trilinos-develop: (57 commits) Geminga: Another attempt to get valgrind suppressions working STK: Snapshot 03-12-21 10:28 MiniEM: Enable reuse, test it Remove older and more complex buildAgainstTrilinos example (trilinos#8498) Update to point to demos/simpleBuildAgainstTrilinos (trilinos#8498) Add explicit COMPONENTS (trilinos#8498) Simpler one-directory build example using Trilinos (trilinos#8498) Intrepid2: UVM-free MonolothicExecutable Tests (trilinos#8852) Link to local INSTALL.rst on same branch (trilinos#8489) Update INSTALL.rst with link to demos/buildAgainstTrilinos (trilinos#8498) Eliminate duplication in tests and set PROCESSORS property (trilinos#8498) Modernize for newer CMake and fix compile error (trilinos#8498) Piro: add 'Optimizer Iteration Number' to Piro_ThyraProductME Tpetra: remove UVM dependence from test (trilinos#8830) tpetra: trilinos#8794 trilinos#8804 test to pick threshold timed out in PR testing. Lowering the upper bound of testing to fit run into PR testing time. Threshold is close to 400, so lowering upper bound of testing should be OK. Correct gcc module loaded for tlcc2 builds MueLu: Add phase2a agg factor to param list for hybrid aggregation Piro: move the Enable Explicit Matrix Transpose option to the app parameter list Piro: print response even for iteration 0 std: -> std:: ...
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@trilinos/tpetra #8794
Motivation
A serial search in insert_crs_indices slowed down nonzero insertion for very dense rows.
This PR substitutes an unordered_map for the serial search when rows are dense enough.
A test program Bug8794.cpp exercises the capability on a matrix with dense and sparse rows.
A utility program insertCrsIndicesThreshold.cpp computes the cross-over point between the serial search and the unordered_map.
Also, unused, untested method findLocalIndices is removed.
If this PR is accepted, the same logic should be added to find_crs_indices as well.
This PR results in faster fillComplete time for power-law type graphs such as twitter (39M rows, 861M nonzeros)
The old and new times to read and distribute the matrix market file and build the matrix (using insertGlobalValues and fillComplete) with a 1D matrix distribution on three processors of ghost are shown below:
Stakeholder Feedback
@crdohrm @shardest
Testing
Tested on ghost cluster, intel 19, serial node.
Threshold value determined by insertCrsIndicesThreshold.cpp: