R-packages – /branches/Matrix-for-R-2.3.x/src/lmer.c

Rev 3543 – branching an "old-R" compatible version of Matrix

maechler — Sat, 02 Sep 2006 16:36:14 +0000

maechler – 1 file(s) modified
branching an "old-R" compatible version of Matrix

+ /branches/Matrix-for-R-2.3.x (copied from /trunk/Matrix@3542)

Rev 3448 – Fix memory leak caught by valgrind.

bates — Mon, 21 Aug 2006 14:38:50 +0000

bates – 1 file(s) modified
Fix memory leak caught by valgrind.

~ /trunk/Matrix/src/lmer.c

Rev 3431 – using R_VERSION (useful more generally) - does not help

maechler — Fri, 18 Aug 2006 17:00:10 +0000

maechler – 2 file(s) modified
using R_VERSION (useful more generally) - does not help

~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 3394 – Adjust glmer_init for S4SXP

bates — Thu, 10 Aug 2006 18:49:06 +0000

bates – 1 file(s) modified
Adjust glmer_init for S4SXP

~ /trunk/Matrix/src/lmer.c

Rev 3361 – hatTrace and warnings about boundary convergence

bates — Tue, 01 Aug 2006 20:26:45 +0000

bates – 6 file(s) modified
hatTrace and warnings about boundary convergence

~ /trunk/Matrix/ChangeLog
+ /trunk/Matrix/inst/external/test3comp.rda
+ /trunk/Matrix/man/hatTrace.Rd
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/tests/lmer.R

Rev 3354 – Add hatTrace function

bates — Mon, 31 Jul 2006 23:05:04 +0000

bates – 3 file(s) modified
Add hatTrace function

~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c

Rev 3339 – pass verbose argument to (gl)mer_MCMCsamp() and use it in C ...

maechler — Fri, 21 Jul 2006 08:28:18 +0000

maechler – 6 file(s) modified
pass verbose argument to (gl)mer_MCMCsamp() and use it in C code

~ /trunk/Matrix/ChangeLog
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/tests/lmer.R

Rev 3331 – Add coersion from CHMfactor to sparseMatrix

bates — Mon, 17 Jul 2006 18:34:45 +0000

bates – 7 file(s) modified
Add coersion from CHMfactor to sparseMatrix

~ /trunk/Matrix/man/CHMfactor-class.Rd
+ /trunk/Matrix/R/CHMfactor.R
+ /trunk/Matrix/src/CHMfactor.c
+ /trunk/Matrix/src/CHMfactor.h
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/SOURCES_C.mkf

Rev 3290 – mcmcsamp for glmer objects

bates — Thu, 06 Jul 2006 15:25:21 +0000

bates – 1 file(s) modified
mcmcsamp for glmer objects

~ /trunk/Matrix/src/lmer.c

Rev 3227 – Re-aligned deviance column in mcmcsamp output (and no longer use ...

bates — Sat, 10 Jun 2006 18:06:33 +0000

bates – 3 file(s) modified
Re-aligned deviance column in mcmcsamp output (and no longer use index of -1); added calculations of mer_hat_trace

~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 3222 – Many changes in mcmcsample and other places

bates — Thu, 08 Jun 2006 16:06:02 +0000

bates – 2 file(s) modified
Many changes in mcmcsample and other places

~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 3180 – Add isNested and for an identity permutation for nested grouping ...

bates — Sat, 27 May 2006 19:51:01 +0000

bates – 7 file(s) modified
Add isNested and for an identity permutation for nested grouping factors

~ /trunk/Matrix/ChangeLog
~ /trunk/Matrix/INDEX
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 3171 – make compilable

maechler — Tue, 23 May 2006 08:01:11 +0000

maechler – 1 file(s) modified
make compilable

~ /trunk/Matrix/src/lmer.c

Rev 3170 – Begin isNested

bates — Mon, 22 May 2006 22:30:11 +0000

bates – 1 file(s) modified
Begin isNested

~ /trunk/Matrix/src/lmer.c

Rev 3169 – Add an implementation of mer_denom_df

bates — Mon, 22 May 2006 19:16:12 +0000

bates – 1 file(s) modified
Add an implementation of mer_denom_df

~ /trunk/Matrix/src/lmer.c

Rev 3153 – Initial denom_df attempt

bates — Sat, 20 May 2006 11:34:18 +0000

bates – 4 file(s) modified
Initial denom_df attempt

~ /trunk/Matrix/INDEX
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 3054 – Added qqmath method for ranef.lmer and postVar for ranef methods

bates — Sun, 09 Apr 2006 00:02:26 +0000

bates – 9 file(s) modified
Added qqmath method for ranef.lmer and postVar for ranef methods

~ /trunk/Matrix/ChangeLog
~ /trunk/Matrix/INDEX
~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/TODO

Rev 2366 – Trivial change in documentation of a function

bates — Sat, 18 Mar 2006 17:41:34 +0000

bates – 1 file(s) modified
Trivial change in documentation of a function

~ /trunk/Matrix/src/lmer.c

Rev 2348 – lmer(): dropped non-sensical 'x' and 'y' arguments

maechler — Tue, 07 Mar 2006 11:06:46 +0000

maechler – 2 file(s) modified
lmer(): dropped non-sensical 'x' and 'y' arguments

~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/src/lmer.c

Rev 2277 – Fix case of cbind(successes, failures) for lmer fitting a GLMM ...

bates — Tue, 07 Feb 2006 23:44:07 +0000

bates – 5 file(s) modified
Fix case of cbind(successes, failures) for lmer fitting a GLMM (see Changelog)

~ /trunk/Matrix/ChangeLog
~ /trunk/Matrix/DESCRIPTION
~ /trunk/Matrix/man/lmer.Rd
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c

Rev 2246 – Fixing memory leaks

bates — Sun, 22 Jan 2006 14:16:04 +0000

bates – 1 file(s) modified
Fixing memory leaks

~ /trunk/Matrix/src/lmer.c

Rev 2224 – Over to Martin for release 0.995-2

bates — Thu, 19 Jan 2006 00:43:37 +0000

bates – 4 file(s) modified
Over to Martin for release 0.995-2

~ /trunk/Matrix/man/lmer.Rd
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/tests/lmer.R

Rev 2212 – Munging the data frame

bates — Tue, 17 Jan 2006 23:41:36 +0000

bates – 6 file(s) modified
Munging the data frame

~ /trunk/Matrix/DESCRIPTION
~ /trunk/Matrix/man/lmer.Rd
~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c

Rev 2194 – Move glmer reweighting to internal_update_ZXy; rearrange the deck chairs

bates — Fri, 13 Jan 2006 23:47:38 +0000

bates – 10 file(s) modified
Move glmer reweighting to internal_update_ZXy; rearrange the deck chairs

~ /trunk/Matrix/INDEX
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/chm_common.c
~ /trunk/Matrix/src/chm_common.h
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/src/Mutils.c
~ /trunk/Matrix/src/Mutils.h
~ /trunk/Matrix/tests/lmer.R

Rev 2187 – Remove redundant registration of dspMatrix_trf; incorporate wts and wrkres slots ...

bates — Thu, 12 Jan 2006 23:39:56 +0000

bates – 4 file(s) modified
Remove redundant registration of dspMatrix_trf; incorporate wts and wrkres slots in mer class

~ /trunk/Matrix/R/AllClass.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/Syms.h

Rev 2174 – Switch to supernodal Cholesky representation of mer objects

bates — Thu, 12 Jan 2006 03:17:24 +0000

bates – 4 file(s) modified
Switch to supernodal Cholesky representation of mer objects

~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/src/Syms.h

Rev 1990 – typo

bates — Wed, 09 Nov 2005 22:39:33 +0000

bates – 1 file(s) modified
typo

~ /trunk/Matrix/src/lmer.c

Rev 1925 – Tidying up

bates — Tue, 11 Oct 2005 18:08:46 +0000

bates – 4 file(s) modified
Tidying up

~ /trunk/Matrix/R/AllClass.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/TODO

Rev 1917 – More mer2 modifications

bates — Mon, 10 Oct 2005 13:54:09 +0000

bates – 4 file(s) modified
More mer2 modifications

~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 1916 – mer2_initial

bates — Fri, 07 Oct 2005 22:14:47 +0000

bates – 4 file(s) modified
mer2_initial

~ /trunk/Matrix/DESCRIPTION
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 1897 – Added a factorization in mer2_create so the permutation could be ...

bates — Fri, 07 Oct 2005 14:20:23 +0000

bates – 1 file(s) modified
Added a factorization in mer2_create so the permutation could be applied to Z'X and Z'y

~ /trunk/Matrix/src/lmer.c

Rev 1896 – Permutation of Z'X and Z'y in mer2_factor

bates — Thu, 06 Oct 2005 23:34:20 +0000

bates – 1 file(s) modified
Permutation of Z'X and Z'y in mer2_factor

~ /trunk/Matrix/src/lmer.c

Rev 1894 – More updates on lmer - still not quite correct

bates — Thu, 06 Oct 2005 03:07:23 +0000

bates – 6 file(s) modified
More updates on lmer - still not quite correct

~ /trunk/Matrix/R/AllClass.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/src/Makefile
~ /trunk/Matrix/src/Syms.h

Rev 1876 – Modifications to mer2

bates — Mon, 03 Oct 2005 01:44:56 +0000

bates – 9 file(s) modified
Modifications to mer2

~ /trunk/Matrix/INDEX
~ /trunk/Matrix/R/AllClass.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/chm_common.c
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/src/Mutils.c
~ /trunk/Matrix/src/Mutils.h

Rev 1851 – Temporary function mer2 to experiment with CHOLMOD-based mixed-effects

bates — Tue, 27 Sep 2005 00:50:35 +0000

bates – 8 file(s) modified
Temporary function mer2 to experiment with CHOLMOD-based mixed-effects

~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/AllClass.R
~ /trunk/Matrix/R/lmer.R
x /trunk/Matrix/src/AMD/Source/Makefile.bak
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h
~ /trunk/Matrix/src/SOURCES_C.mkf

Rev 1798 – Remove unnecessary declaration

bates — Wed, 07 Sep 2005 20:43:18 +0000

bates – 1 file(s) modified
Remove unnecessary declaration

~ /trunk/Matrix/src/lmer.c

Rev 1792 – Add "start" argument to lmer

bates — Tue, 06 Sep 2005 01:26:11 +0000

bates – 7 file(s) modified
Add "start" argument to lmer

~ /trunk/Matrix/INDEX
~ /trunk/Matrix/man/lmer.Rd
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 1779 – New simulate method for lmer objects

bates — Thu, 01 Sep 2005 13:46:21 +0000

bates – 7 file(s) modified
New simulate method for lmer objects

~ /trunk/Matrix/man/simulate.Rd
~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 1770 – Added simulate generic and method

bates — Tue, 30 Aug 2005 14:35:05 +0000

bates – 6 file(s) modified
Added simulate generic and method

+ /trunk/Matrix/man/simulate.Rd
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/init.c
~ /trunk/Matrix/src/lmer.c
~ /trunk/Matrix/src/lmer.h

Rev 1769 – Add simulate method for lmer

bates — Sun, 28 Aug 2005 13:57:39 +0000

bates – 4 file(s) modified
Add simulate method for lmer

~ /trunk/Matrix/NAMESPACE
~ /trunk/Matrix/R/AllGeneric.R
~ /trunk/Matrix/R/lmer.R
~ /trunk/Matrix/src/lmer.c