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Diff of /pkg/ChangeLog

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revision 1213, Tue Feb 7 23:44:07 2006 UTC revision 1259, Tue Apr 25 18:42:22 2006 UTC
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1    2006-04-25  Douglas Bates  <bates@stat.wisc.edu>
2    
3            * R/dtCMatrix.R: avoid coercion of dtCMatrix object to dgCMatrix
4            in method for "t" so as not to lose the unit diagonal property.
5    
6    2006-04-19  Douglas Bates  <bates@stat.wisc.edu>
7    
8            * R/lmer.R, R/AllGeneric.R, NAMESPACE: Remove the postVar generic
9            and methods.  This is now an option to the ranef method for the
10            mer class.
11    
12            * src/cs_utils.c: Ensure that the nz component is -1 for a
13            compressed column-oriented matrix.  Minor formatting cleanup.
14    
15            * man/lmer-class.Rd: Document the qqmath method for ranef.lmer
16            objects.
17    
18    2006-04-19  Martin Maechler  <maechler@stat.math.ethz.ch>
19    
20            * R/Auxiliaries.R (diagU2N): new for the solve() methods in
21            * R/dtCMatrix.R: where dgC -> dgT coercion now preserves diag = "U".
22    
23    2006-04-15  Douglas Bates  <bates@stat.wisc.edu>
24    
25            * src/cs.[ch],src/cs_utils.[ch] : Added Tim Davis' CSparse library
26            in cs.[ch] and utilities to interface to that code in cs_utils.[ch].
27    
28            * R/dtCMatrix.R, src/dtCMatrix.[ch] : CSparse-based solve methods
29            for the dtCMatrix class.
30    
31    2006-04-12  Douglas Bates  <bates@stat.wisc.edu>
32    
33            * R/pedigree.R, R/AllClass.R, NAMESPACE: added a pedigree class
34            and methods for it.
35    
36    2006-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
37    
38            * R/dgCMatrix.R: add  storage.mode(.) <- "double" for "matrix"
39            arguments, such that M %*% 1:6 now works
40            * Tests/matprod.R: test the above
41    
42    2006-04-03  Douglas Bates  <bates@stat.wisc.edu>
43    
44            * R/lmer.R (qqmath,ranef.lmer-method): added a qqmath method for
45            the ranef.lmer class.
46    
47            * R/AllClass.R, NAMESPACE, R/lmer.R: Added a postVar generic and
48            methods to extract the posterior variances from the bVar slot.
49    
50    2006-03-30  Martin Maechler  <maechler@stat.math.ethz.ch>
51    
52            * R/dtCMatrix.R: allow coercion from  dgC* to triangular (dtC*)
53            * R/dsCMatrix.R: and symmetric (dsC*) 'Csparse' matrices.
54    
55            * R/Tsparse.R: Tsparse* -> Csparse* coercion now works and is tested in
56            * tests/simple: (extended)
57    
58            * R/sparseMatrix.R (isTriangular): now using much improved
59            * R/Auxiliaries.R (isTriC): new triangularity check for *CMatrix
60    
61    2006-03-23  Douglas Bates  <bates@stat.wisc.edu>
62    
63            * src/dsyMatrix.c (dsyMatrix_as_dspMatrix): Propagate DimNames
64            (problem report from Franklin Parlamis).  This should be done
65            generally.
66    
67    2006-03-21  Douglas Bates  <bates@stat.wisc.edu>
68    
69            * R/AllClass.R,lmer.R: Change the name of the lmer.ranef class to
70            ranef.lmer (like summary.lmer).  Add the coef.lmer class and
71            update the plot methods.
72    
73    2006-03-20  Douglas Bates  <bates@stat.wisc.edu>
74    
75            * R/lmer.R (resid and ranef methods):  Added methods for the
76            "residuals" and "resid" generic but only for linear mixed model
77            fits.  Changed the ranef method to return a list of data frames so
78            that the plot methods now work.
79    
80    2006-03-16  Douglas Bates  <bates@bates2>
81    
82            * src/dpoMatrix.c (dpoMatrix_chol): Require n > 0 in call to
83            dpotrf - otherwise the BLAS on Mac OS X complains and quits.
84    
85            * DESCRIPTION (Date): New release
86    
87    2006-03-15  Martin Maechler  <maechler@stat.math.ethz.ch>
88    
89            * DESCRIPTION (Version): 0.995-6  -- to be released to CRAN
90    
91            * data/KNex.rda: replacing 'mm' and 'y' by KNex <- list(mm=mm, y=y)
92            * man/KNex.Rd: and other help files
93            * tests/*.R: several ones needed adaption
94            * inst/doc/Comparisons.Rnw: dito
95    
96    2006-03-11  Martin Maechler  <maechler@stat.math.ethz.ch>
97    
98            * R/dgCMatrix.R (replCmat): "[<-" methods for dgCMatrix
99    
100            * tests/indexing.R: tests for new [<- methods for sparse matrices.
101    
102    2006-03-10  Martin Maechler  <maechler@stat.math.ethz.ch>
103    
104            * R/dgTMatrix.R (replTmat): "[<-" methods for dgTMatrix
105    
106            * R/Tsparse.R (.ind.prep): fix out-of-range indexing
107    
108    2006-03-08  Martin Maechler  <maechler@stat.math.ethz.ch>
109    
110            * R/dMatrix.R: enable things like  M [ M < 10 ]
111            * R/dgeMatrix.R: implement it
112    
113    2006-03-06  Martin Maechler  <maechler@stat.math.ethz.ch>
114    
115            * R/AllClass.R: define "summary.mer" and "*.lmer"
116            * R/lmer.R (summary): summary(<mer>) computes & returns the above;
117            * R/lmer.R (show): now works with summary()
118    
119    2006-03-04  Martin Maechler  <maechler@stat.math.ethz.ch>
120    
121            * R/dgCMatrix.R: finally direct "Arith"  dgC o dgC
122            * R/Auxiliaries.R (WhichintersectInd): and other utilities to
123                    support the above
124    
125  2006-02-07  Douglas Bates  <bates@stat.wisc.edu>  2006-02-07  Douglas Bates  <bates@stat.wisc.edu>
126    
127          * R/lmer.R (lmer): fix initial values of offset and weights for glm.fit.          * R/lmer.R (lmer): fix initial values of offset and weights for glm.fit.

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