openmx:openmx.git
2 years agoSwitch to stan stan
Joshua Nathaniel Pritikin [Wed, 7 Jan 2015 14:11:13 +0000 (09:11 -0500)]
Switch to stan

2 years agoShow how to compute fit only
Joshua Nathaniel Pritikin [Tue, 6 Jan 2015 19:22:12 +0000 (14:22 -0500)]
Show how to compute fit only

2 years agoFix API
Joshua Nathaniel Pritikin [Tue, 6 Jan 2015 18:57:59 +0000 (13:57 -0500)]
Fix API

2 years agoRemove deadcode
Joshua Nathaniel Pritikin [Tue, 6 Jan 2015 18:53:43 +0000 (13:53 -0500)]
Remove deadcode

2 years agoWorking
Joshua Nathaniel Pritikin [Tue, 6 Jan 2015 18:48:59 +0000 (13:48 -0500)]
Working

2 years agosnap
Joshua Nathaniel Pritikin [Sat, 3 Jan 2015 22:02:22 +0000 (17:02 -0500)]
snap

2 years agoSimplify
Joshua Nathaniel Pritikin [Sat, 3 Jan 2015 19:00:47 +0000 (14:00 -0500)]
Simplify

2 years agoTidy includes
Joshua Nathaniel Pritikin [Fri, 2 Jan 2015 20:37:32 +0000 (15:37 -0500)]
Tidy includes

2 years agorm boost
Joshua Nathaniel Pritikin [Fri, 2 Jan 2015 12:51:37 +0000 (07:51 -0500)]
rm boost

2 years agoSimplify more
Joshua Nathaniel Pritikin [Fri, 2 Jan 2015 12:40:49 +0000 (07:40 -0500)]
Simplify more

2 years agoRemove prob_grad
Joshua Nathaniel Pritikin [Tue, 30 Dec 2014 15:32:51 +0000 (10:32 -0500)]
Remove prob_grad

2 years agoSimplfiy
Joshua Nathaniel Pritikin [Tue, 30 Dec 2014 15:28:07 +0000 (10:28 -0500)]
Simplfiy

2 years agoTidy
Joshua Nathaniel Pritikin [Tue, 30 Dec 2014 15:08:07 +0000 (10:08 -0500)]
Tidy

2 years agoTidy more
Joshua Nathaniel Pritikin [Sun, 28 Dec 2014 21:42:42 +0000 (16:42 -0500)]
Tidy more

2 years agoSimplify
Joshua Nathaniel Pritikin [Sat, 27 Dec 2014 02:50:37 +0000 (21:50 -0500)]
Simplify

2 years agoSimplfiy
Joshua Nathaniel Pritikin [Sat, 27 Dec 2014 02:45:19 +0000 (21:45 -0500)]
Simplfiy

2 years agoSimplfiy
Joshua Nathaniel Pritikin [Sat, 27 Dec 2014 02:44:30 +0000 (21:44 -0500)]
Simplfiy

2 years agosimplify
Joshua Nathaniel Pritikin [Sat, 27 Dec 2014 02:34:43 +0000 (21:34 -0500)]
simplify

2 years agoBasic stuff working
Joshua Nathaniel Pritikin [Sat, 2 Aug 2014 09:03:39 +0000 (14:33 +0530)]
Basic stuff working

2 years agoAdd EigenMatrixAdaptor
Joshua Nathaniel Pritikin [Tue, 6 Jan 2015 20:16:29 +0000 (15:16 -0500)]
Add EigenMatrixAdaptor

2 years agoDeadcode
jpritikin [Wed, 7 Jan 2015 18:48:30 +0000 (18:48 +0000)]
Deadcode

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4130 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoUse 'int' for Eigen rows and columns
jpritikin [Wed, 7 Jan 2015 18:46:26 +0000 (18:46 +0000)]
Use 'int' for Eigen rows and columns

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4129 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd omxEnsureColumnMajor API
jpritikin [Wed, 7 Jan 2015 18:45:23 +0000 (18:45 +0000)]
Add omxEnsureColumnMajor API

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4128 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove '#define EPSILON'; clashes with stan headers
jpritikin [Wed, 7 Jan 2015 16:05:41 +0000 (16:05 +0000)]
Remove '#define EPSILON'; clashes with stan headers

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4127 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoPrevent Varadhan2008 from failing near convergence
jpritikin [Wed, 7 Jan 2015 16:04:24 +0000 (16:04 +0000)]
Prevent Varadhan2008 from failing near convergence

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4126 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoThrow error on attempt to invert incomplete Hessian
jpritikin [Wed, 7 Jan 2015 16:03:36 +0000 (16:03 +0000)]
Throw error on attempt to invert incomplete Hessian

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4125 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Correct exclusion of inequality constraints from gradient/Hessian
jpritikin [Fri, 19 Dec 2014 16:05:02 +0000 (16:05 +0000)]
CSOLNP: Correct exclusion of inequality constraints from gradient/Hessian

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4124 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove unused variable
jpritikin [Thu, 18 Dec 2014 19:29:35 +0000 (19:29 +0000)]
Remove unused variable

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4123 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoWhen checkpointing fit, record who requested it
jpritikin [Thu, 18 Dec 2014 18:47:17 +0000 (18:47 +0000)]
When checkpointing fit, record who requested it

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4122 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAllow test to run on both optimizers
jpritikin [Thu, 18 Dec 2014 18:41:04 +0000 (18:41 +0000)]
Allow test to run on both optimizers

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4121 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd CIs to continuous time model
jpritikin [Thu, 18 Dec 2014 18:41:03 +0000 (18:41 +0000)]
Add CIs to continuous time model

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4120 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd some omxCheckCloseEnough
jpritikin [Thu, 18 Dec 2014 18:41:01 +0000 (18:41 +0000)]
Add some omxCheckCloseEnough

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4119 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDeadcode removal
jpritikin [Thu, 18 Dec 2014 18:40:59 +0000 (18:40 +0000)]
Deadcode removal

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4118 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRestore parallel processing for CIs
jpritikin [Thu, 18 Dec 2014 18:40:57 +0000 (18:40 +0000)]
Restore parallel processing for CIs

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4117 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd a checkpoint entry for each CI attempt
jpritikin [Thu, 18 Dec 2014 18:40:54 +0000 (18:40 +0000)]
Add a checkpoint entry for each CI attempt

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4116 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd "Checkpoint Fullpath" to override output destination
jpritikin [Thu, 18 Dec 2014 18:40:52 +0000 (18:40 +0000)]
Add "Checkpoint Fullpath" to override output destination

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4115 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake mxOption(model, val) return the global setting or the model's override
jpritikin [Thu, 18 Dec 2014 18:40:50 +0000 (18:40 +0000)]
Make mxOption(model, val) return the global setting or the model's override

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4114 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMove to failing
jpritikin [Thu, 18 Dec 2014 12:07:18 +0000 (12:07 +0000)]
Move to failing

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4113 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd WLS standard error and chi-square functions
mhunter [Thu, 18 Dec 2014 04:29:58 +0000 (04:29 +0000)]
Add WLS standard error and chi-square functions

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4112 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoConsolidate starting value nudging logic in ComputeGD
jpritikin [Thu, 18 Dec 2014 03:51:10 +0000 (03:51 +0000)]
Consolidate starting value nudging logic in ComputeGD

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4111 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTry harder to keep CIs ordered properly vs estimate
jpritikin [Thu, 18 Dec 2014 03:51:07 +0000 (03:51 +0000)]
Try harder to keep CIs ordered properly vs estimate

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4110 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd copyright to Multilevel example
mhunter [Wed, 17 Dec 2014 20:44:42 +0000 (20:44 +0000)]
Add copyright to Multilevel example

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4109 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd check for model identification checking function
mhunter [Wed, 17 Dec 2014 20:44:18 +0000 (20:44 +0000)]
Add check for model identification checking function

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4108 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAnother typo fix in previous commit
mhunter [Wed, 17 Dec 2014 18:57:50 +0000 (18:57 +0000)]
Another typo fix in previous commit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4107 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTypo fix in previous commit
mhunter [Wed, 17 Dec 2014 18:55:57 +0000 (18:55 +0000)]
Typo fix in previous commit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4106 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd partial identification information to ID check. Tells which parameters are not...
mhunter [Wed, 17 Dec 2014 18:51:54 +0000 (18:51 +0000)]
Add partial identification information to ID check.  Tells which parameters are not identified.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4105 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Avoid reuse of obm for more than 1 purpose
jpritikin [Wed, 17 Dec 2014 17:14:55 +0000 (17:14 +0000)]
CSOLNP: Avoid reuse of obm for more than 1 purpose

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4104 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Simplify CI calculation
jpritikin [Wed, 17 Dec 2014 16:00:33 +0000 (16:00 +0000)]
CSOLNP: Simplify CI calculation

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4103 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Tidy optimizer reporting
jpritikin [Wed, 17 Dec 2014 16:00:31 +0000 (16:00 +0000)]
CSOLNP: Tidy optimizer reporting

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4102 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRelax tolerance
jpritikin [Wed, 17 Dec 2014 16:00:28 +0000 (16:00 +0000)]
Relax tolerance

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4101 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Count the number of major iterations
jpritikin [Wed, 17 Dec 2014 02:27:13 +0000 (02:27 +0000)]
CSOLNP: Count the number of major iterations

Not sure if this is exactly right

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4100 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd Makefile rule to run the failing tests
jpritikin [Tue, 16 Dec 2014 22:04:03 +0000 (22:04 +0000)]
Add Makefile rule to run the failing tests

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4099 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Return stuff via CSOLNPFit; isolate Matrix inside of subnp
jpritikin [Tue, 16 Dec 2014 22:04:00 +0000 (22:04 +0000)]
CSOLNP: Return stuff via CSOLNPFit; isolate Matrix inside of subnp

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4098 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Remove some redundent information
jpritikin [Tue, 16 Dec 2014 19:38:32 +0000 (19:38 +0000)]
CSOLNP: Remove some redundent information

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4097 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove template argument from CSOLNP::solnp
jpritikin [Tue, 16 Dec 2014 19:38:30 +0000 (19:38 +0000)]
Remove template argument from CSOLNP::solnp

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4096 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoStore equality & inequality results in CSOLNPFit
jpritikin [Tue, 16 Dec 2014 19:38:28 +0000 (19:38 +0000)]
Store equality & inequality results in CSOLNPFit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4095 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoReduce variable lifetime
yang [Tue, 16 Dec 2014 15:29:00 +0000 (15:29 +0000)]
Reduce variable lifetime

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4094 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTidy some minor valgrind issues
jpritikin [Tue, 16 Dec 2014 15:00:30 +0000 (15:00 +0000)]
Tidy some minor valgrind issues

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4093 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRemove q() from test
jpritikin [Tue, 16 Dec 2014 15:00:29 +0000 (15:00 +0000)]
Remove q() from test

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4092 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMove nightly test to passing
jpritikin [Tue, 16 Dec 2014 11:39:27 +0000 (11:39 +0000)]
Move nightly test to passing

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4091 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Convert control param to Eigen vector
jpritikin [Tue, 16 Dec 2014 10:20:28 +0000 (10:20 +0000)]
CSOLNP: Convert control param to Eigen vector

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4090 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Move bounds to CSOLNPFit; remove lots of deadcode
jpritikin [Tue, 16 Dec 2014 01:03:49 +0000 (01:03 +0000)]
CSOLNP: Move bounds to CSOLNPFit; remove lots of deadcode

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4089 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Move inequality bounds to CSOLNPFit
jpritikin [Mon, 15 Dec 2014 20:28:05 +0000 (20:28 +0000)]
CSOLNP: Move inequality bounds to CSOLNPFit

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4088 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Remove Matrix arg from CSOLNPFit::solFun
jpritikin [Mon, 15 Dec 2014 20:28:03 +0000 (20:28 +0000)]
CSOLNP: Remove Matrix arg from CSOLNPFit::solFun

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4087 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Remove GLOB_ prefix since variables are no longer global
jpritikin [Mon, 15 Dec 2014 17:36:15 +0000 (17:36 +0000)]
CSOLNP: Remove GLOB_ prefix since variables are no longer global

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4086 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Eliminate more globals
jpritikin [Mon, 15 Dec 2014 17:36:13 +0000 (17:36 +0000)]
CSOLNP: Eliminate more globals

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4085 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Continue refactoring API
jpritikin [Mon, 15 Dec 2014 17:36:11 +0000 (17:36 +0000)]
CSOLNP: Continue refactoring API

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4084 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Pass parameter vector using Eigen
jpritikin [Mon, 15 Dec 2014 17:36:10 +0000 (17:36 +0000)]
CSOLNP: Pass parameter vector using Eigen

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4083 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Rewrite omxProcessConstraintsCsolnp in Eigen
jpritikin [Mon, 15 Dec 2014 17:36:07 +0000 (17:36 +0000)]
CSOLNP: Rewrite omxProcessConstraintsCsolnp in Eigen

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4082 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoDocument constraint types better (in source code)
jpritikin [Mon, 15 Dec 2014 17:36:04 +0000 (17:36 +0000)]
Document constraint types better (in source code)

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4081 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Don't bother creating the unused solEqB matrix
jpritikin [Mon, 15 Dec 2014 17:36:03 +0000 (17:36 +0000)]
CSOLNP: Don't bother creating the unused solEqB matrix

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4080 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Eliminate reliance on all-zero solEqB
jpritikin [Mon, 15 Dec 2014 17:36:00 +0000 (17:36 +0000)]
CSOLNP: Eliminate reliance on all-zero solEqB

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4079 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoConstraints bounds are determined by the type
jpritikin [Mon, 15 Dec 2014 17:35:58 +0000 (17:35 +0000)]
Constraints bounds are determined by the type

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4078 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake it easier to run tests
jpritikin [Mon, 15 Dec 2014 17:35:57 +0000 (17:35 +0000)]
Make it easier to run tests

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4077 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSimplify setup of constraints
jpritikin [Mon, 15 Dec 2014 17:35:55 +0000 (17:35 +0000)]
Simplify setup of constraints

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4076 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Put in temporary fix for conformability of derivs with constraints
jpritikin [Mon, 15 Dec 2014 12:55:28 +0000 (12:55 +0000)]
CSOLNP: Put in temporary fix for conformability of derivs with constraints

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4075 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Fix some problems revealed by Eigen conformability checking
jpritikin [Mon, 15 Dec 2014 03:13:16 +0000 (03:13 +0000)]
CSOLNP: Fix some problems revealed by Eigen conformability checking

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4074 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoRework calculation of compiler args; add IMX_SAFE switch
jpritikin [Mon, 15 Dec 2014 02:45:33 +0000 (02:45 +0000)]
Rework calculation of compiler args; add IMX_SAFE switch

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4073 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd test for omxGetParameters
jpritikin [Sat, 13 Dec 2014 21:52:57 +0000 (21:52 +0000)]
Add test for omxGetParameters

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4072 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSwitch default optimizer back to CSOLNP
jpritikin [Sat, 13 Dec 2014 19:21:00 +0000 (19:21 +0000)]
Switch default optimizer back to CSOLNP

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4071 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoomxGetParameters: Omit duplicated parameters even when there are no submodels
jpritikin [Sat, 13 Dec 2014 19:18:43 +0000 (19:18 +0000)]
omxGetParameters: Omit duplicated parameters even when there are no submodels

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4070 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoTidy up MxMatrix-related error and warning messages; re-write MatrixErrorDetection...
rkirkpatrick [Fri, 12 Dec 2014 16:40:47 +0000 (16:40 +0000)]
Tidy up MxMatrix-related error and warning messages; re-write MatrixErrorDetection.R to be much more thorough.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4069 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoBA81: Need to fail hard
jpritikin [Thu, 11 Dec 2014 14:28:24 +0000 (14:28 +0000)]
BA81: Need to fail hard

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4068 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoBA81: Prohibit all NA rows
jpritikin [Wed, 10 Dec 2014 20:21:04 +0000 (20:21 +0000)]
BA81: Prohibit all NA rows

All NA rows screw up latent distribution estimates.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4067 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSmall but important MxMatrix-related adjustments.
rkirkpatrick [Wed, 10 Dec 2014 19:11:05 +0000 (19:11 +0000)]
Small but important MxMatrix-related adjustments.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4066 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdd Jacobian-based model identification check.
mhunter [Sun, 7 Dec 2014 14:29:50 +0000 (14:29 +0000)]
Add Jacobian-based model identification check.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4065 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdded method for getting cov, means, and thresh from LISREL expectation.
mhunter [Sat, 6 Dec 2014 17:36:55 +0000 (17:36 +0000)]
Added method for getting cov, means, and thresh from LISREL expectation.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4064 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdded method for getting cov, means, and thresh from RAM expectation.
mhunter [Sat, 6 Dec 2014 15:52:55 +0000 (15:52 +0000)]
Added method for getting cov, means, and thresh from RAM expectation.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4063 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAdded generic for getting expected covariance, means, and thresholds.
mhunter [Sat, 6 Dec 2014 15:52:13 +0000 (15:52 +0000)]
Added generic for getting expected covariance, means, and thresholds.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4062 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoSmall test for LISREL type, to be expanded as LISREL functionality expands.
mhunter [Fri, 5 Dec 2014 20:55:29 +0000 (20:55 +0000)]
Small test for LISREL type, to be expanded as LISREL functionality expands.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4061 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoLISREL model initialization.
mhunter [Fri, 5 Dec 2014 20:54:26 +0000 (20:54 +0000)]
LISREL model initialization.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4060 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoBetter MxMatrix verification to catch at runtime a lot of user blunders involving...
rkirkpatrick [Fri, 5 Dec 2014 18:46:29 +0000 (18:46 +0000)]
Better MxMatrix verification to catch at runtime a lot of user blunders involving condenseSlots and @ <- .

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4059 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoConditionally "condense" the 'labels', 'free', 'lbound', and 'ubound' slots of MxMatr...
rkirkpatrick [Fri, 5 Dec 2014 16:58:27 +0000 (16:58 +0000)]
Conditionally "condense" the 'labels', 'free', 'lbound', and 'ubound' slots of MxMatrix objects.

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4058 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Convert ind to Eigen; make easier to understand
jpritikin [Fri, 5 Dec 2014 16:44:49 +0000 (16:44 +0000)]
CSOLNP: Convert ind to Eigen; make easier to understand

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4057 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoEnable ubsan for gcc 4.9+
jpritikin [Fri, 5 Dec 2014 16:37:38 +0000 (16:37 +0000)]
Enable ubsan for gcc 4.9+

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4056 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoMake gcc happier
jpritikin [Fri, 5 Dec 2014 16:37:38 +0000 (16:37 +0000)]
Make gcc happier

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4055 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Remove more deadcode
jpritikin [Fri, 5 Dec 2014 15:46:43 +0000 (15:46 +0000)]
CSOLNP: Remove more deadcode

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4054 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoAvoid reuse of condif[123]
jpritikin [Fri, 5 Dec 2014 15:34:49 +0000 (15:34 +0000)]
Avoid reuse of condif[123]

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4053 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agotest if OpenMx disorders thresholds
tbates [Fri, 5 Dec 2014 14:53:14 +0000 (14:53 +0000)]
test if OpenMx disorders thresholds

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4052 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1

2 years agoCSOLNP: Remove bounds check; all Eigen ops are already bounds checked
jpritikin [Fri, 5 Dec 2014 14:27:26 +0000 (14:27 +0000)]
CSOLNP: Remove bounds check; all Eigen ops are already bounds checked

git-svn-id: http://openmx.psyc.virginia.edu/svn/trunk@4051 df83fd30-4cca-4c36-ab9d-e8b5583ccbd1