--- pkg/ChangeLog 2006/05/16 19:12:13 1267
+++ pkg/ChangeLog 2006/07/06 15:29:56 1312
@@ -1,3 +1,74 @@
+2006-07-06 Douglas Bates
+
+ * src/pedigree.c (pedigree_inbreeding): Correction in
+ initialization. This function is not currently being used and is
+ not fully tested.
+
+ * NAMESPACE, R/{AllClass.R,lmer.R}, src/{init.c,lmer.c}:
+ Introduced the glmer class. Added code for mcmcmsamp on glmer
+ objects. Modified validity check on pedigree objects to account
+ for nonparallel patterns of missingness of parents.
+
+2006-06-12 Douglas Bates
+
+ * R/lmer.R (mcmcsamp method): Corrected arrangments of names on
+ the output from mcmcsamp.
+
+2006-06-10 Douglas Bates
+
+ * R/lmer.R (simulestimate): added C code for calculating the trace
+ of the hat matrix.
+
+2006-06-09 Martin Maechler
+
+ * R/diagMatrix.R (setAs): define coercion methods to sparse matrix
+ classes.
+
+2006-06-08 Martin Maechler
+
+ * R/dgTMatrix.R (colSums): etc. All four of
+ colSums(), rowSums(), colMeans(), rowMeans() now should work for
+ all "Matrices".
+
+2006-06-01 Douglas Bates
+
+ * R/lmer.R (panel.ci): Add a reference line at zero and a
+ background grid to the qqmath plot of ranef.lmer.
+
+2006-05-30 Douglas Bates
+
+ * R/lmer.R (expandSlash): Functions (non-exported) to allow nested
+ grouping factors to be specified in the formula as (1|foo/bar).
+
+2006-05-27 Douglas Bates
+
+ * R/lmer.R (findbars and others): Change check of is.numeric to
+ !is.language to resolve the bug reported by Jacob Wegelin.
+
+ * src/pedigree.c (pedigree_inbreeding): Initial implementation of
+ code to evaluate inbreeding coefficients without calculating T,
+ based on code in Sargolzaei and Iwaisaki's paper.
+
+2006-05-27 Douglas Bates
+
+ * R/{lmer.R,AllGeneric.R}, src/{init.c,lmer.[ch]}: Added local
+ generic and mer methods for isNested and denomDF. This denomDF was
+ an attempt to emulate that in lme but I don't think that makes
+ sense. Use the trace of the hat matrix instead.
+
+2006-05-17 Martin Maechler
+
+ * R/sparseMatrix.R: Matrix <-> graph methods: can no longer use
+ the C code depending on a slot structure that's no longer valid.
+ * src/dgTMatrix.c: dito (also: src/init.c src/dgTMatrix.h)
+
+
+2006-05-17 Douglas Bates
+
+ * R/{AllGeneric.R,Csparse.R},man/band.Rd,NAMESPACE: changed name
+ of lowerTriMatrix generic and methods to tril (also upper to triu)
+ and added a general band extractor.
+
2006-05-16 Douglas Bates
* R/pedigree.R (pedigree): Replace sire and dam values outside the