openmx:openmx.git
4 years agomxSimplify2Array doc
jpritikin [Wed, 2 Jul 2014 08:48:30 +0000 (08:48 +0000)]
mxSimplify2Array doc

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3602 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoContinue adding documentation
jpritikin [Wed, 2 Jul 2014 02:36:00 +0000 (02:36 +0000)]
Continue adding documentation

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3601 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoInline performance critical functions
jpritikin [Wed, 2 Jul 2014 02:35:47 +0000 (02:35 +0000)]
Inline performance critical functions

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3600 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd heuristic to Newton-Raphson to cope with overly optimistic search direction
jpritikin [Wed, 2 Jul 2014 02:35:37 +0000 (02:35 +0000)]
Add heuristic to Newton-Raphson to cope with overly optimistic search direction

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3599 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRename mxExpectationBA81 arguments per dev discussion
jpritikin [Wed, 2 Jul 2014 02:35:16 +0000 (02:35 +0000)]
Rename mxExpectationBA81 arguments per dev discussion

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3598 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoDefault mean & cov to standard normal
jpritikin [Wed, 2 Jul 2014 02:34:52 +0000 (02:34 +0000)]
Default mean & cov to standard normal

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3597 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor code to remove EAP scores; use RPF instead
jpritikin [Wed, 2 Jul 2014 02:34:20 +0000 (02:34 +0000)]
Refactor code to remove EAP scores; use RPF instead

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3596 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRename test for consistency
jpritikin [Wed, 2 Jul 2014 02:33:57 +0000 (02:33 +0000)]
Rename test for consistency

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3595 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoMake NPSOL the default if available
jpritikin [Sat, 28 Jun 2014 04:57:57 +0000 (04:57 +0000)]
Make NPSOL the default if available

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3594 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdded verbose=FALSE argument to mxSummary to change amount of information that is...
mhunter [Fri, 27 Jun 2014 21:57:24 +0000 (21:57 +0000)]
Added verbose=FALSE argument to mxSummary to change amount of information that is printed.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3593 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd matrix logarithm algebra operator
jpritikin [Fri, 27 Jun 2014 10:28:18 +0000 (10:28 +0000)]
Add matrix logarithm algebra operator

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3592 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoMove more CI code from frontend to backend
jpritikin [Thu, 26 Jun 2014 06:59:39 +0000 (06:59 +0000)]
Move more CI code from frontend to backend

This avoids the need to find the size of an mxAlgebra in the front end.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3591 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 6/6
jpritikin [Wed, 25 Jun 2014 04:19:04 +0000 (04:19 +0000)]
Refactor BA81 code 6/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3590 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 5/6
jpritikin [Wed, 25 Jun 2014 04:18:52 +0000 (04:18 +0000)]
Refactor BA81 code 5/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3589 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 4/6
jpritikin [Wed, 25 Jun 2014 04:18:42 +0000 (04:18 +0000)]
Refactor BA81 code 4/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3588 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 3/6
jpritikin [Wed, 25 Jun 2014 04:18:30 +0000 (04:18 +0000)]
Refactor BA81 code 3/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3587 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 2/6
jpritikin [Wed, 25 Jun 2014 04:18:20 +0000 (04:18 +0000)]
Refactor BA81 code 2/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3586 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor BA81 code 1/6
jpritikin [Wed, 25 Jun 2014 04:18:10 +0000 (04:18 +0000)]
Refactor BA81 code 1/6

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3585 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd some commented code to run item fit tests
jpritikin [Wed, 25 Jun 2014 04:17:59 +0000 (04:17 +0000)]
Add some commented code to run item fit tests

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3584 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoImprove error message
jpritikin [Wed, 25 Jun 2014 04:17:46 +0000 (04:17 +0000)]
Improve error message

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3583 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agojust adding a link to vech2full in the vech Rd
tbates [Mon, 23 Jun 2014 20:55:41 +0000 (20:55 +0000)]
just adding a link to vech2full in the vech Rd

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3582 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agochange @ style for $
tbates [Mon, 23 Jun 2014 19:45:21 +0000 (19:45 +0000)]
change @ style for $

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3581 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoenhance error for unknown function in algebra - help and alternative names
tbates [Mon, 23 Jun 2014 19:27:23 +0000 (19:27 +0000)]
enhance error for unknown function in algebra - help and alternative names

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3580 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoHandle RAM expectation with A specified as an algebra
jpritikin [Sat, 21 Jun 2014 09:00:24 +0000 (09:00 +0000)]
Handle RAM expectation with A specified as an algebra

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3579 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoEstimate 0 factor IFA models (null models)
jpritikin [Fri, 20 Jun 2014 10:34:05 +0000 (10:34 +0000)]
Estimate 0 factor IFA models (null models)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3578 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoPass version=1 to rpf.rparam
jpritikin [Fri, 20 Jun 2014 04:09:32 +0000 (04:09 +0000)]
Pass version=1 to rpf.rparam

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3577 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoImprove diagnostics
jpritikin [Fri, 20 Jun 2014 04:09:13 +0000 (04:09 +0000)]
Improve diagnostics

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3576 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoContinue on IFA chapter
jpritikin [Tue, 17 Jun 2014 11:01:55 +0000 (11:01 +0000)]
Continue on IFA chapter

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3575 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFix some markup typos
jpritikin [Tue, 17 Jun 2014 11:01:45 +0000 (11:01 +0000)]
Fix some markup typos

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3574 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoBetter way to label and reference figures
jpritikin [Tue, 17 Jun 2014 11:01:36 +0000 (11:01 +0000)]
Better way to label and reference figures

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3573 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoContinue expanding the IFA manual section
jpritikin [Mon, 16 Jun 2014 12:22:24 +0000 (12:22 +0000)]
Continue expanding the IFA manual section

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3572 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoVisually decorate figures so they stand out from the rest of the text
jpritikin [Mon, 16 Jun 2014 12:22:14 +0000 (12:22 +0000)]
Visually decorate figures so they stand out from the rest of the text

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3571 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRecompute fit at the end of mxComputeGradientDescent
jpritikin [Mon, 16 Jun 2014 07:41:29 +0000 (07:41 +0000)]
Recompute fit at the end of mxComputeGradientDescent

See http://openmx.psyc.virginia.edu/thread/3260

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3570 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd missing argument to the doc
jpritikin [Mon, 16 Jun 2014 07:41:20 +0000 (07:41 +0000)]
Add missing argument to the doc

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3569 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoExecute the end of the E-step in parallel
jpritikin [Mon, 16 Jun 2014 07:41:12 +0000 (07:41 +0000)]
Execute the end of the E-step in parallel

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3568 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoEnsure all items are in a valid specific group (two-tier)
jpritikin [Mon, 16 Jun 2014 07:41:03 +0000 (07:41 +0000)]
Ensure all items are in a valid specific group (two-tier)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3567 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoDisallow passing 1 item spec to get the same spec for all items
jpritikin [Mon, 16 Jun 2014 07:40:53 +0000 (07:40 +0000)]
Disallow passing 1 item spec to get the same spec for all items

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3566 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoCRAN prohibits variable length arrays
jpritikin [Mon, 16 Jun 2014 07:40:42 +0000 (07:40 +0000)]
CRAN prohibits variable length arrays

And that's probably a good thing too because declaring variable length
arrays on the stack can contribute to stack overflows.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3565 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoBetter error message when a CI is not found. Let user know what to check and do
tbates [Fri, 13 Jun 2014 21:38:19 +0000 (21:38 +0000)]
Better error message when a CI is not found. Let user know what to check and do

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3564 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFix for a minor bug that dates back to version 1.3.2 (at least). Now, mxVersion(...
rkirkpatrick [Fri, 13 Jun 2014 20:15:59 +0000 (20:15 +0000)]
Fix for a minor bug that dates back to version 1.3.2 (at least). Now, mxVersion() reports the version number of the OpenMx package loaded into R's workspace, not the version number of the OpenMx package installed in the first directory in .libPaths() .

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3563 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoMake demoTwoFactor.csv data accurately loadable with data(demoTwoFactor) by changing...
mhunter [Thu, 12 Jun 2014 19:16:35 +0000 (19:16 +0000)]
Make demoTwoFactor.csv data accurately loadable with data(demoTwoFactor) by changing all ',' to ';'.  For some reason data() reads .csv files in with sep=';' and not sep=',',

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3562 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdded $ accessor for intervals in MxModels. model produces the same result as model...
mhunter [Thu, 12 Jun 2014 19:11:36 +0000 (19:11 +0000)]
Added $ accessor for intervals in MxModels.  model produces the same result as model@intervals.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3561 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdded $ accessor for options slot of MxModel objects. model and model@options now...
mhunter [Tue, 10 Jun 2014 19:11:47 +0000 (19:11 +0000)]
Added $ accessor for options slot of MxModel objects.  model and model@options now produce the same result.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3560 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdded check of many (but not all) of the parts of MxSummary.
mhunter [Tue, 10 Jun 2014 18:32:14 +0000 (18:32 +0000)]
Added check of many (but not all) of the parts of MxSummary.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3559 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd data to go with LISREL example.
mhunter [Tue, 10 Jun 2014 13:55:21 +0000 (13:55 +0000)]
Add data to go with LISREL example.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3558 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdded joint ordinal continuous example and an example with means to LISREL man page.
mhunter [Tue, 10 Jun 2014 13:54:47 +0000 (13:54 +0000)]
Added joint ordinal continuous example and an example with means to LISREL man page.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3557 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefactor EAP calculation
jpritikin [Tue, 10 Jun 2014 07:40:42 +0000 (07:40 +0000)]
Refactor EAP calculation

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3556 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoImprove safety of mxFactor
jpritikin [Tue, 10 Jun 2014 02:37:46 +0000 (02:37 +0000)]
Improve safety of mxFactor

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3555 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoStart writing the IFA manual
jpritikin [Mon, 9 Jun 2014 10:36:36 +0000 (10:36 +0000)]
Start writing the IFA manual

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3554 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoMove reference to the bottom of the page
jpritikin [Mon, 9 Jun 2014 10:36:06 +0000 (10:36 +0000)]
Move reference to the bottom of the page

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3553 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoOmit unnecessary section title for Contents
jpritikin [Mon, 9 Jun 2014 09:06:16 +0000 (09:06 +0000)]
Omit unnecessary section title for Contents

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3552 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAutomatically use correct version number when building manual
jpritikin [Mon, 9 Jun 2014 09:06:07 +0000 (09:06 +0000)]
Automatically use correct version number when building manual

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3551 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoConvert to unix line endings
jpritikin [Mon, 9 Jun 2014 09:05:51 +0000 (09:05 +0000)]
Convert to unix line endings

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3550 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd mxSimplify2Array for irregular length vectors
jpritikin [Mon, 9 Jun 2014 09:05:42 +0000 (09:05 +0000)]
Add mxSimplify2Array for irregular length vectors

Also see https://bugs.r-project.org/bugzilla3/show_bug.cgi?id=15820

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3549 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoLet doc generation depend on rcheck
jpritikin [Mon, 9 Jun 2014 09:05:33 +0000 (09:05 +0000)]
Let doc generation depend on rcheck

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3548 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoHide DO NOT EXECUTE markers better
jpritikin [Mon, 9 Jun 2014 09:05:21 +0000 (09:05 +0000)]
Hide DO NOT EXECUTE markers better

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3547 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRepair citation markup
jpritikin [Mon, 9 Jun 2014 05:26:38 +0000 (05:26 +0000)]
Repair citation markup

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3546 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRevise internals description based on a deeper understanding
jpritikin [Mon, 9 Jun 2014 05:26:28 +0000 (05:26 +0000)]
Revise internals description based on a deeper understanding

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3545 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoExtract and run code from the manual to ensure that it works
jpritikin [Mon, 9 Jun 2014 05:26:18 +0000 (05:26 +0000)]
Extract and run code from the manual to ensure that it works

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3544 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoUpdate man page for BA81 expectation
jpritikin [Mon, 9 Jun 2014 05:25:57 +0000 (05:25 +0000)]
Update man page for BA81 expectation

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3543 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFix minor brokenness in the manual
jpritikin [Sun, 8 Jun 2014 11:06:37 +0000 (11:06 +0000)]
Fix minor brokenness in the manual

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3542 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoOne more link
jpritikin [Sun, 8 Jun 2014 10:46:29 +0000 (10:46 +0000)]
One more link

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3541 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFix broken links in the documentation
jpritikin [Sun, 8 Jun 2014 10:44:37 +0000 (10:44 +0000)]
Fix broken links in the documentation

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3540 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRevive mx-scripts in more sensible location
jpritikin [Sun, 8 Jun 2014 10:31:08 +0000 (10:31 +0000)]
Revive mx-scripts in more sensible location

I didn't realize that we link to these from the documentation.
The reason I removed these originally is because I wanted
to do automated syntax checking on everything in model/.
If we locate these old scripts somewhere else then the
automated checks can continue undisturbed.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3539 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAdd simulation study for Orlando & Thissen (2000)
jpritikin [Sun, 8 Jun 2014 00:22:43 +0000 (00:22 +0000)]
Add simulation study for Orlando & Thissen (2000)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3538 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoDrop Eigen2Support
jpritikin [Sun, 8 Jun 2014 00:22:29 +0000 (00:22 +0000)]
Drop Eigen2Support

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3537 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFixed bug in Chi square degrees of freedom calculation. Added reporting of Chi squar...
mhunter [Fri, 6 Jun 2014 16:25:37 +0000 (16:25 +0000)]
Fixed bug in Chi square degrees of freedom calculation.  Added reporting of Chi square DoF.  Minor bug fix in saturated model helper.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3536 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agomodified error msg in mxRun and mxOption to tell user how to change default optimizer...
tbates [Fri, 6 Jun 2014 15:32:21 +0000 (15:32 +0000)]
modified error msg in mxRun and mxOption to tell user how to change default optimizer, and how to add a fit function

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3535 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoWarn if not at a subversion known commit
jpritikin [Fri, 6 Jun 2014 13:40:32 +0000 (13:40 +0000)]
Warn if not at a subversion known commit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3534 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoCope when neither SVN nor GIT is installed
jpritikin [Fri, 6 Jun 2014 03:39:33 +0000 (03:39 +0000)]
Cope when neither SVN nor GIT is installed

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3533 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoSearch history for the most recent SVN commit
jpritikin [Thu, 5 Jun 2014 04:38:54 +0000 (04:38 +0000)]
Search history for the most recent SVN commit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3531 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoQuote shell variable expansion (safer)
jpritikin [Thu, 5 Jun 2014 04:38:44 +0000 (04:38 +0000)]
Quote shell variable expansion (safer)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3530 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFind SVN build number when using GIT
jpritikin [Thu, 5 Jun 2014 04:19:15 +0000 (04:19 +0000)]
Find SVN build number when using GIT

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3529 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoUse 2.0.0 instead of 999.0.0
jpritikin [Thu, 5 Jun 2014 04:12:49 +0000 (04:12 +0000)]
Use 2.0.0 instead of 999.0.0

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3528 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFix configure for source builds
jpritikin [Thu, 5 Jun 2014 04:08:53 +0000 (04:08 +0000)]
Fix configure for source builds

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3527 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoEstimates are good in NPSOL but poor in CSOLNP - step size issue?
tbates [Wed, 4 Jun 2014 16:05:40 +0000 (16:05 +0000)]
Estimates are good in NPSOL but poor in CSOLNP - step size issue?

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3526 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRefuse to set "Default optimizer" on models
jpritikin [Wed, 4 Jun 2014 09:54:07 +0000 (09:54 +0000)]
Refuse to set "Default optimizer" on models

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3525 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRevert "Development"
jpritikin [Wed, 4 Jun 2014 09:37:21 +0000 (09:37 +0000)]
Revert "Development"

This reverts commit 3326677c6af2b3519863e866c3c35658a9a49570.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3524 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoDevelopment
jpritikin [Wed, 4 Jun 2014 09:36:31 +0000 (09:36 +0000)]
Development

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3523 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoReinstate R_CheckUserInterrupt
jpritikin [Wed, 4 Jun 2014 09:36:21 +0000 (09:36 +0000)]
Reinstate R_CheckUserInterrupt

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3522 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoFail if a model has an expectation, no fitfunction, and no custom compute plan
jpritikin [Sun, 1 Jun 2014 04:32:36 +0000 (04:32 +0000)]
Fail if a model has an expectation, no fitfunction, and no custom compute plan

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3521 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoReduce tolerance for SEM SEs
jpritikin [Sun, 1 Jun 2014 03:46:29 +0000 (03:46 +0000)]
Reduce tolerance for SEM SEs

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3520 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoUse type Eigen::DenseIndex instead of guessing int or long
jpritikin [Sun, 1 Jun 2014 01:17:00 +0000 (01:17 +0000)]
Use type Eigen::DenseIndex instead of guessing int or long

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3519 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoUpdate for 2.0beta1
jpritikin [Sat, 31 May 2014 06:54:12 +0000 (06:54 +0000)]
Update for 2.0beta1

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3518 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRequire ItemParam rownames to match latent factor names
jpritikin [Sat, 31 May 2014 01:04:18 +0000 (01:04 +0000)]
Require ItemParam rownames to match latent factor names

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3517 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAuto-detect two-tier covariance structure; remove explicit design matrix
jpritikin [Sat, 31 May 2014 01:04:00 +0000 (01:04 +0000)]
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

4 years agoSwitch libifa-rpf from C to C++
jpritikin [Sat, 31 May 2014 01:03:46 +0000 (01:03 +0000)]
Switch libifa-rpf from C to C++

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3515 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoSplit BA81 quadrature code into a separate file
jpritikin [Sat, 31 May 2014 01:03:36 +0000 (01:03 +0000)]
Split BA81 quadrature code into a separate file

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3514 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoDon't need long width integer counters
jpritikin [Sat, 31 May 2014 01:03:25 +0000 (01:03 +0000)]
Don't need long width integer counters

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3513 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRe-factor quadrature setup
jpritikin [Sat, 31 May 2014 01:03:17 +0000 (01:03 +0000)]
Re-factor quadrature setup

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3512 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoOmit E-step related math for likelihood CIs
jpritikin [Sat, 31 May 2014 01:03:09 +0000 (01:03 +0000)]
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

4 years agoRepair debug logging
jpritikin [Sat, 31 May 2014 01:02:59 +0000 (01:02 +0000)]
Repair debug logging

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3510 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoSet negative eigenvalues to a small positive number instead of zero
jpritikin [Sat, 31 May 2014 01:02:52 +0000 (01:02 +0000)]
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

4 years agoAccept both NA and "" to disable EM acceleration
jpritikin [Sat, 31 May 2014 01:02:45 +0000 (01:02 +0000)]
Accept both NA and "" to disable EM acceleration

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3508 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoReimplement omxData storage to facilitate dynamic data
jpritikin [Sat, 31 May 2014 01:02:38 +0000 (01:02 +0000)]
Reimplement omxData storage to facilitate dynamic data

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3507 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoAlways recompute patternLik
jpritikin [Sat, 31 May 2014 01:02:30 +0000 (01:02 +0000)]
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

4 years agoDocument how to remove a Rd file from roxygen2 control
jpritikin [Sat, 31 May 2014 01:02:23 +0000 (01:02 +0000)]
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

4 years agoHighlight discrepancy in IFA sandwich estimator
jpritikin [Sat, 31 May 2014 01:02:14 +0000 (01:02 +0000)]
Highlight discrepancy in IFA sandwich estimator

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3504 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoRewrite EAP in terms of templates
jpritikin [Sat, 31 May 2014 01:02:05 +0000 (01:02 +0000)]
Rewrite EAP in terms of templates

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3503 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

4 years agoomxAssignFirstParameters should not explode with 0 free parameters
jpritikin [Sat, 31 May 2014 01:01:57 +0000 (01:01 +0000)]
omxAssignFirstParameters should not explode with 0 free parameters

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@3502 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1