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Auto-detect two-tier covariance structure; remove explicit design matrix git-svn-id: http://open...

OpenMx trunk - Fri, 05/30/2014 - 21:04
In openmx/openmx.git:master Auto-detect two-tier covariance structure; remove explicit design matrix git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3516 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Switch libifa-rpf from C to C++ git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3515 df83f...

OpenMx trunk - Fri, 05/30/2014 - 21:03
In openmx/openmx.git:master Switch libifa-rpf from C to C++ git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3515 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Split BA81 quadrature code into a separate file git-svn-id: http://openmx.psyc.virginia.edu/svn/...

OpenMx trunk - Fri, 05/30/2014 - 21:03
In openmx/openmx.git:master Split BA81 quadrature code into a separate file git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3514 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Don't need long width integer counters git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@351...

OpenMx trunk - Fri, 05/30/2014 - 21:03
In openmx/openmx.git:master Don't need long width integer counters git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3513 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Re-factor quadrature setup git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3512 df83fd30-4...

OpenMx trunk - Fri, 05/30/2014 - 21:03
In openmx/openmx.git:master Re-factor quadrature setup git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3512 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Omit E-step related math for likelihood CIs For models/passing/fm-example-2-2.R, before: 23.12u...

OpenMx trunk - Fri, 05/30/2014 - 21:03
In openmx/openmx.git:master Omit E-step related math for likelihood CIs For models/passing/fm-example-2-2.R, before: 23.12user 0.10system 0:04.46elapsed 520%CPU (0avgtext+0avgdata 113388maxresident)k 0inputs+0outputs (0major+44592minor)pagefaults 0swaps After: 17.48user 0.10system 0:03.78elapsed 465%CPU (0avgtext+0avgdata 116028maxresident)k 0inputs+0outputs (0major+45061minor)pagefaults 0swaps git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3511 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Repair debug logging git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3510 df83fd30-4cca-4c...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Repair debug logging git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3510 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Set negative eigenvalues to a small positive number instead of zero git-svn-id: http://openmx.ps...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Set negative eigenvalues to a small positive number instead of zero git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3509 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Accept both NA and "" to disable EM acceleration git-svn-id: http://openmx.psyc.virginia.edu/svn...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Accept both NA and "" to disable EM acceleration git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3508 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Reimplement omxData storage to facilitate dynamic data git-svn-id: http://openmx.psyc.virginia.e...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Reimplement omxData storage to facilitate dynamic data git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3507 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Always recompute patternLik This is always necessary in the fast path. The only possible gain is...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Always recompute patternLik This is always necessary in the fast path. The only possible gain is in slow paths, but the dependency tracking is too complex to be worth it. git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3506 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Document how to remove a Rd file from roxygen2 control git-svn-id: http://openmx.psyc.virginia.e...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Document how to remove a Rd file from roxygen2 control git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3505 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Highlight discrepancy in IFA sandwich estimator git-svn-id: http://openmx.psyc.virginia.edu/svn/...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Highlight discrepancy in IFA sandwich estimator git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3504 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Rewrite EAP in terms of templates git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3503 df8...

OpenMx trunk - Fri, 05/30/2014 - 21:02
In openmx/openmx.git:master Rewrite EAP in terms of templates git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3503 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

omxAssignFirstParameters should not explode with 0 free parameters git-svn-id: http://openmx.psy...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master omxAssignFirstParameters should not explode with 0 free parameters git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3502 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Return EAP scores as a data.frame and preserve row names git-svn-id: http://openmx.psyc.virginia...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master Return EAP scores as a data.frame and preserve row names git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3501 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Refactor using Policy-based design 2/2 git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@350...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master Refactor using Policy-based design 2/2 git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3500 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Refactor using Policy-based design 1/2 git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@349...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master Refactor using Policy-based design 1/2 git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3499 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Specialize E-step depending on whether the latent distribution is free/fixed Here is a cachegrin...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master Specialize E-step depending on whether the latent distribution is free/fixed Here is a cachegrind report for models/passing/ifa-drm1.R compare to the previous commit. -------------------------------------------------------------------------------- Ir I1mr ILmr Dr D1mr DLmr Dw D1mw DLmw -------------------------------------------------------------------------------- -387,889 14,599 -339 -106,312 17,469 -2,184 -167,558 -966 -1,411 PROGRAM TOTALS -------------------------------------------------------------------------------- Ir I1mr ILmr Dr D1mr DLmr Dw D1mw DLmw file:function -------------------------------------------------------------------------------- -15,701,195 -489 -164 -4,202,130 -2,952 7 -2,240,096 -806 -176 src/omxExpectationBA81.cpp:ba81compute(omxExpectation*, char const*, char const*) 14,145,386 152 56 3,879,420 1,725 0 1,890,272 758 176 src/omxExpectationBA81.cpp:BA81EngineBase<BA81EngineLatentFixed>::ba81Estep1() 1,079,960 31 7 187,340 0 0 170,810 0 0 src/omxExpectationBA81.cpp:BA81EngineLatentFixed::normalizeWeights(int, double) -275,500 -19 -7 -275,500 -313 0 0 0 0 src/omxData.h:ba81compute(omxExpectation*, char const*, char const*) 275,500 0 0 275,500 236 0 0 0 0 src/omxData.h:BA81EngineBase<BA81EngineLatentFixed>::ba81Estep1() 58,957 0 0 11,818 0 0 11,780 1,444 453 /usr/include/c++/4.8/bits/stl_algobase.h:BA81EngineBase<BA81EngineLatentFixed>::ba81Estep1() -49,685 -19 -7 0 0 0 -12,407 -1,494 -458 /usr/include/c++/4.8/bits/stl_algobase.h:ba81compute(omxExpectation*, char const*, char const*) 44,118 19 7 11,020 37 0 5,529 0 0 src/omxExpectationBA81.h:BA81EngineBase<BA81EngineLatentFixed>::ba81Estep1() [snip] git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3498 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

Fix signature mismatch in displayCompute git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3...

OpenMx trunk - Fri, 05/30/2014 - 21:01
In openmx/openmx.git:master Fix signature mismatch in displayCompute git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3497 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1
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