openmx:openmx.git
2 years agoFixed a bug where could not be accessed from a model object, and adjusted one test... master
tbrick [Sat, 7 Feb 2015 18:55:35 +0000 (18:55 +0000)]
Fixed a bug where  could not be accessed from a model object, and adjusted one test to match.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4238 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFixed some typos and mistakes in omxConstrainThresholds.
tbrick [Sat, 7 Feb 2015 18:52:08 +0000 (18:52 +0000)]
Fixed some typos and mistakes in omxConstrainThresholds.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4237 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoStop Roxygen from making Rd file for non-exported function
mhunter [Sat, 7 Feb 2015 13:33:22 +0000 (13:33 +0000)]
Stop Roxygen from making Rd file for non-exported function

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4236 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFlip inverted test
jpritikin [Sat, 7 Feb 2015 00:39:31 +0000 (00:39 +0000)]
Flip inverted test

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4235 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoExclude DESCRIPTION.in from tarball
jpritikin [Sat, 7 Feb 2015 00:33:33 +0000 (00:33 +0000)]
Exclude DESCRIPTION.in from tarball

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4234 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoPut a cap on the growth of cran-check diagnostics
jpritikin [Sat, 7 Feb 2015 00:33:32 +0000 (00:33 +0000)]
Put a cap on the growth of cran-check diagnostics

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4233 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd rule to extract DESCRIPTION
jpritikin [Sat, 7 Feb 2015 00:33:30 +0000 (00:33 +0000)]
Add rule to extract DESCRIPTION

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4232 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDon't make everything depend on clean
jpritikin [Sat, 7 Feb 2015 00:33:29 +0000 (00:33 +0000)]
Don't make everything depend on clean

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4231 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoShow content listing of tarball prior to cran-check
jpritikin [Sat, 7 Feb 2015 00:33:27 +0000 (00:33 +0000)]
Show content listing of tarball prior to cran-check

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4230 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRename mxLog_wrapper to avoid exporting
jpritikin [Sat, 7 Feb 2015 00:33:26 +0000 (00:33 +0000)]
Rename mxLog_wrapper to avoid exporting

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4229 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDoc matrix exp/log
jpritikin [Sat, 7 Feb 2015 00:33:24 +0000 (00:33 +0000)]
Doc matrix exp/log

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4228 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRepair failing test
jpritikin [Thu, 5 Feb 2015 22:19:53 +0000 (22:19 +0000)]
Repair failing test

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4227 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRe-added omxConstrainThresholds.R to DESCRIPTION.in.
tbrick [Thu, 5 Feb 2015 14:57:14 +0000 (14:57 +0000)]
Re-added omxConstrainThresholds.R to DESCRIPTION.in.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4226 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoPossibly working version of omxConstrainThresholds. Sets thresholds, but does not...
tbrick [Thu, 5 Feb 2015 14:22:50 +0000 (14:22 +0000)]
Possibly working version of omxConstrainThresholds.  Sets thresholds, but does not work at starting values.  Needs further development.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4225 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoEnsure per-row likelihoods reflect the correct parameter estimates
jpritikin [Thu, 5 Feb 2015 14:09:34 +0000 (14:09 +0000)]
Ensure per-row likelihoods reflect the correct parameter estimates

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4224 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRevert "Added omxConstrainThresholds.R to the DESCRIPTION list."
jpritikin [Thu, 5 Feb 2015 14:09:33 +0000 (14:09 +0000)]
Revert "Added omxConstrainThresholds.R to the DESCRIPTION list."

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4223 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRe-enabled automatic return of FIML row likelihoods.
tbrick [Wed, 4 Feb 2015 23:26:34 +0000 (23:26 +0000)]
Re-enabled automatic return of FIML row likelihoods.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4222 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdded omxConstrainThresholds.R to the DESCRIPTION list. Otherwise, building fails.
tbrick [Wed, 4 Feb 2015 23:23:51 +0000 (23:23 +0000)]
Added omxConstrainThresholds.R to the DESCRIPTION list.  Otherwise, building fails.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4221 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoUpdate copyright for R files
mhunter [Wed, 4 Feb 2015 19:45:06 +0000 (19:45 +0000)]
Update copyright for R files

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4220 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd Matrix package to Suggests
mhunter [Wed, 4 Feb 2015 19:39:50 +0000 (19:39 +0000)]
Add Matrix package to Suggests

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4219 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDocument argument for WLS data
mhunter [Wed, 4 Feb 2015 19:34:39 +0000 (19:34 +0000)]
Document argument for WLS data

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4218 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAnother typo found by cran check
mhunter [Wed, 4 Feb 2015 19:11:55 +0000 (19:11 +0000)]
Another typo found by cran check

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4217 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoanother full argument match
mhunter [Wed, 4 Feb 2015 18:53:45 +0000 (18:53 +0000)]
another full argument match

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4216 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoUse full argument name match instead of partial
mhunter [Wed, 4 Feb 2015 18:51:02 +0000 (18:51 +0000)]
Use full argument name match instead of partial

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4215 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCorrect typo in LISREL model
mhunter [Wed, 4 Feb 2015 18:48:27 +0000 (18:48 +0000)]
Correct typo in LISREL model

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4214 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agomxData code/documentation sync
mhunter [Wed, 4 Feb 2015 18:36:17 +0000 (18:36 +0000)]
mxData code/documentation sync

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4213 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoProgress on LISREL Paths
mhunter [Wed, 4 Feb 2015 18:34:08 +0000 (18:34 +0000)]
Progress on LISREL Paths

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4212 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFix broken alias link
mhunter [Wed, 4 Feb 2015 18:24:01 +0000 (18:24 +0000)]
Fix broken alias link

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4211 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoClean cran check errors from demo
mhunter [Wed, 4 Feb 2015 17:47:32 +0000 (17:47 +0000)]
Clean cran check errors from demo

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4210 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdjust state space documentation to match the code that uses contemporaneous input...
mhunter [Tue, 3 Feb 2015 17:41:24 +0000 (17:41 +0000)]
Adjust state space documentation to match the code that uses contemporaneous input effects

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4209 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDefinition variable evaluation bug fix when data sorting is turned off
mhunter [Tue, 3 Feb 2015 00:17:14 +0000 (00:17 +0000)]
Definition variable evaluation bug fix when data sorting is turned off

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4208 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoStore the gradient when we perform finite differences for the Hessian
jpritikin [Mon, 2 Feb 2015 14:30:53 +0000 (14:30 +0000)]
Store the gradient when we perform finite differences for the Hessian

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4207 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake model identified (somebody forgot to include the means)
jpritikin [Mon, 2 Feb 2015 13:42:31 +0000 (13:42 +0000)]
Make model identified (somebody forgot to include the means)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4206 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP fails if the sense of the constraint is reversed
jpritikin [Sun, 1 Feb 2015 20:17:11 +0000 (20:17 +0000)]
CSOLNP fails if the sense of the constraint is reversed

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4205 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake test model that's not supposed to use derivatives actually not use them, and...
rkirkpatrick [Fri, 30 Jan 2015 15:38:05 +0000 (15:38 +0000)]
Make test model that's not supposed to use derivatives actually not use them, and patch bug the faulty test model was hiding.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4204 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoManifest paths allowed for LISREL
mhunter [Fri, 30 Jan 2015 04:23:53 +0000 (04:23 +0000)]
Manifest paths allowed for LISREL

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4203 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoLatent paths allowed for LISREL
mhunter [Fri, 30 Jan 2015 04:04:31 +0000 (04:04 +0000)]
Latent paths allowed for LISREL

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4202 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd lower bounds on the variances
jpritikin [Thu, 29 Jan 2015 13:27:24 +0000 (13:27 +0000)]
Add lower bounds on the variances

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4201 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoChange from Rf_protect() statements to use of the ScopedProtect class.
rkirkpatrick [Wed, 28 Jan 2015 18:44:15 +0000 (18:44 +0000)]
Change from Rf_protect() statements to use of the ScopedProtect class.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4200 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoClean up and streamline code for GREML derivatives.
rkirkpatrick [Wed, 28 Jan 2015 18:19:16 +0000 (18:19 +0000)]
Clean up and streamline code for GREML derivatives.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4199 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoGREML test script should make sure the model runs both with and without analytic...
rkirkpatrick [Wed, 28 Jan 2015 18:10:07 +0000 (18:10 +0000)]
GREML test script should make sure the model runs both with and without analytic derivatives.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4198 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 12/12
jpritikin [Wed, 28 Jan 2015 15:47:27 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 12/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4197 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 11/12
jpritikin [Wed, 28 Jan 2015 15:47:25 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 11/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4196 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 10/12
jpritikin [Wed, 28 Jan 2015 15:47:22 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 10/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4195 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 9/12
jpritikin [Wed, 28 Jan 2015 15:47:19 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 9/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4194 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 8/12
jpritikin [Wed, 28 Jan 2015 15:47:16 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 8/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4193 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 7/12
jpritikin [Wed, 28 Jan 2015 15:47:12 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 7/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4192 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 6/12
jpritikin [Wed, 28 Jan 2015 15:47:11 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 6/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4191 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 5/12
jpritikin [Wed, 28 Jan 2015 15:47:09 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 5/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4190 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 4/12
jpritikin [Wed, 28 Jan 2015 15:47:07 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 4/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4189 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 3/12
jpritikin [Wed, 28 Jan 2015 15:47:05 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 3/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4188 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 2/12
jpritikin [Wed, 28 Jan 2015 15:47:03 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 2/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4187 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCarefully refactor confidence intervals 1/12
jpritikin [Wed, 28 Jan 2015 15:47:01 +0000 (15:47 +0000)]
Carefully refactor confidence intervals 1/12

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4186 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd diag
jpritikin [Wed, 28 Jan 2015 15:46:59 +0000 (15:46 +0000)]
Add diag

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4185 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoInelegantly coded but working implementation of analytic GREML derivatives.
rkirkpatrick [Tue, 27 Jan 2015 20:35:24 +0000 (20:35 +0000)]
Inelegantly coded but working implementation of analytic GREML derivatives.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4184 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoImprove test organization
jpritikin [Tue, 27 Jan 2015 19:10:15 +0000 (19:10 +0000)]
Improve test organization

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4183 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRepair free memory read in debug code (no serious consequences)
jpritikin [Tue, 27 Jan 2015 14:16:54 +0000 (14:16 +0000)]
Repair free memory read in debug code (no serious consequences)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4182 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAllow 'make clean' to succeed without a pre-existing build dir
jpritikin [Tue, 27 Jan 2015 14:16:53 +0000 (14:16 +0000)]
Allow 'make clean' to succeed without a pre-existing build dir

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4181 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSimplify verbose plumbing
jpritikin [Mon, 26 Jan 2015 16:58:17 +0000 (16:58 +0000)]
Simplify verbose plumbing

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4180 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoImprove error message
jpritikin [Mon, 26 Jan 2015 16:58:14 +0000 (16:58 +0000)]
Improve error message

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4179 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDoc defvar.row argument
jpritikin [Mon, 26 Jan 2015 16:58:12 +0000 (16:58 +0000)]
Doc defvar.row argument

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4178 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoContinue refactor of ComputeGD
jpritikin [Mon, 26 Jan 2015 16:10:24 +0000 (16:10 +0000)]
Continue refactor of ComputeGD

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4177 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove commented debug code
jpritikin [Mon, 26 Jan 2015 16:10:21 +0000 (16:10 +0000)]
Remove commented debug code

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4176 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFactor out diagnostics
jpritikin [Mon, 26 Jan 2015 16:10:19 +0000 (16:10 +0000)]
Factor out diagnostics

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4175 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Move control parameters into CSOLNPFit structure
jpritikin [Mon, 26 Jan 2015 16:10:17 +0000 (16:10 +0000)]
CSOLNP: Move control parameters into CSOLNPFit structure

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4174 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoReimagine CSOLNPFit as GradientOptimizerAPI
jpritikin [Mon, 26 Jan 2015 16:10:14 +0000 (16:10 +0000)]
Reimagine CSOLNPFit as GradientOptimizerAPI

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4173 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoBegin refactor of optimizer interface
jpritikin [Mon, 26 Jan 2015 16:10:11 +0000 (16:10 +0000)]
Begin refactor of optimizer interface

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4172 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDon't try to nudge zero starts again
jpritikin [Mon, 26 Jan 2015 16:10:09 +0000 (16:10 +0000)]
Don't try to nudge zero starts again

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4171 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoBetter implementation for IterationError
jpritikin [Sat, 24 Jan 2015 11:31:34 +0000 (11:31 +0000)]
Better implementation for IterationError

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4170 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFix man page for check id
mhunter [Sat, 24 Jan 2015 05:37:35 +0000 (05:37 +0000)]
Fix man page for check id

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4169 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd ability to do means paths for LISREL type models.
mhunter [Sat, 24 Jan 2015 00:46:46 +0000 (00:46 +0000)]
Add ability to do means paths for LISREL type models.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4168 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTweak suggested debug options
jpritikin [Fri, 23 Jan 2015 21:54:20 +0000 (21:54 +0000)]
Tweak suggested debug options

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4167 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTiny code cleanup of NPSOL CIs
jpritikin [Fri, 23 Jan 2015 21:54:17 +0000 (21:54 +0000)]
Tiny code cleanup of NPSOL CIs

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4166 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoReport iteration error when threads are enabled
jpritikin [Fri, 23 Jan 2015 21:54:13 +0000 (21:54 +0000)]
Report iteration error when threads are enabled

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4165 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDo not freak out. It is just updating the copyright.
mhunter [Fri, 23 Jan 2015 21:19:50 +0000 (21:19 +0000)]
Do not freak out.  It is just updating the copyright.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4164 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCorrected a bug where out-of-order threshold errors were not reported.
tbrick [Fri, 23 Jan 2015 14:20:19 +0000 (14:20 +0000)]
Corrected a bug where out-of-order threshold errors were not reported.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4163 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoImprove Hessian inversion in mxStandardizeRAMpaths().
rkirkpatrick [Thu, 22 Jan 2015 16:26:10 +0000 (16:26 +0000)]
Improve Hessian inversion in mxStandardizeRAMpaths().

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4162 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoPermit run-time toggling of protect depth diagnostics
jpritikin [Tue, 20 Jan 2015 20:34:57 +0000 (20:34 +0000)]
Permit run-time toggling of protect depth diagnostics

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4161 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRequest GREML fixed effects via argument to expectation, not via compute plan, and...
rkirkpatrick [Tue, 20 Jan 2015 17:23:21 +0000 (17:23 +0000)]
Request GREML fixed effects via argument to expectation, not via compute plan, and move calculation of regression coefficients to the attribute-population step.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4160 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove oudated use of mx*Objective
mhunter [Fri, 16 Jan 2015 19:59:39 +0000 (19:59 +0000)]
Remove oudated use of mx*Objective

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4159 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoGREML fixed effects and test model; code cleanup.
rkirkpatrick [Fri, 16 Jan 2015 17:01:15 +0000 (17:01 +0000)]
GREML fixed effects and test model; code cleanup.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4158 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoFix test for optimizer; additionally test for mxCondenseMatrixSlots default
jpritikin [Fri, 16 Jan 2015 15:25:30 +0000 (15:25 +0000)]
Fix test for optimizer; additionally test for mxCondenseMatrixSlots default

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4157 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTidy Makevars
jpritikin [Fri, 16 Jan 2015 15:25:29 +0000 (15:25 +0000)]
Tidy Makevars

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4156 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRepair package dependencies
jpritikin [Fri, 16 Jan 2015 15:25:29 +0000 (15:25 +0000)]
Repair package dependencies

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4155 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRevert recent CSOLNP changes
jpritikin [Fri, 16 Jan 2015 15:25:29 +0000 (15:25 +0000)]
Revert recent CSOLNP changes

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4154 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoEnsure memory is not overwritten
jpritikin [Fri, 16 Jan 2015 15:25:28 +0000 (15:25 +0000)]
Ensure memory is not overwritten

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4153 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDocumentation for check identification function
mhunter [Thu, 15 Jan 2015 23:38:54 +0000 (23:38 +0000)]
Documentation for check identification function

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4152 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: problems in recent Eigen commits fixed
mzahery [Thu, 15 Jan 2015 20:20:23 +0000 (20:20 +0000)]
CSOLNP: problems in recent Eigen commits fixed

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4151 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSuggest gcc option -Og for debugging compatible optimization
jpritikin [Wed, 14 Jan 2015 20:20:16 +0000 (20:20 +0000)]
Suggest gcc option -Og for debugging compatible optimization

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4150 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agocheck regression for bug where models cant be re-run
tbates [Wed, 14 Jan 2015 17:35:20 +0000 (17:35 +0000)]
check regression for bug where models cant be re-run

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4149 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSwitch from Eigen::Map to the safer EigenMatrixAdaptor; trim deadcode.
rkirkpatrick [Wed, 14 Jan 2015 15:32:49 +0000 (15:32 +0000)]
Switch from Eigen::Map to the safer EigenMatrixAdaptor; trim deadcode.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4148 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSmall fix for CSOLNP: Gradually writing subnp function in Eigen
jpritikin [Wed, 14 Jan 2015 14:30:05 +0000 (14:30 +0000)]
Small fix for CSOLNP: Gradually writing subnp function in Eigen

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4147 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agotest if OpenMx is defaulting to NPSOL
tbates [Wed, 14 Jan 2015 13:37:30 +0000 (13:37 +0000)]
test if OpenMx is defaulting to NPSOL

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4146 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRepair selection of default optimizer
jpritikin [Tue, 13 Jan 2015 20:39:45 +0000 (20:39 +0000)]
Repair selection of default optimizer

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4145 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake EigenMatrixAdaptor compile (oops)
jpritikin [Tue, 13 Jan 2015 19:01:40 +0000 (19:01 +0000)]
Make EigenMatrixAdaptor compile (oops)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4144 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd EigenMatrixAdaptor
jpritikin [Tue, 13 Jan 2015 18:45:56 +0000 (18:45 +0000)]
Add EigenMatrixAdaptor

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4143 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: correcting revision 4137
mzahery [Tue, 13 Jan 2015 18:04:39 +0000 (18:04 +0000)]
CSOLNP: correcting revision 4137

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4142 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMinimal, rough implementation of GREML.
rkirkpatrick [Tue, 13 Jan 2015 17:22:54 +0000 (17:22 +0000)]
Minimal, rough implementation of GREML.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4141 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoUpdate CHANGES
jpritikin [Sat, 10 Jan 2015 01:34:16 +0000 (01:34 +0000)]
Update CHANGES

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4140 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Writing subnp function in Eigen (6)
mzahery [Fri, 9 Jan 2015 21:01:31 +0000 (21:01 +0000)]
CSOLNP: Writing subnp function in Eigen (6)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4139 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1