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Diff of /pkg/ChangeLog

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revision 848, Thu Aug 11 07:41:59 2005 UTC revision 1119, Sat Jan 7 19:52:37 2006 UTC
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1    2006-01-07  Douglas Bates  <bates@bates4.stat.wisc.edu>
2    
3            * src/dgBCMatrix.c (cscb_trcbsm): Fix due to Peter Dalgaard for
4            segfault in cases with multiple non-nested grouping factors.
5    
6    2006-01-03  Martin Maechler  <maechler@stat.math.ethz.ch>
7    
8            * DESCRIPTION (Version): 0.99-4 to be released to CRAN
9                    (Depends): also on 'utils'
10    
11            * R/AllClass.R (diagonalMatrix): new class with "ddi*" and "ldi*"
12            * R/diagMatrix.R (Diagonal): constructor and methods for
13            diagonal matrices
14    
15            * R/ltTMatrix.R: new "minimal methods"
16    
17    2005-12-12  Martin Maechler  <maechler@stat.math.ethz.ch>
18    
19            * R/AllGeneric.R (tcrossprod): 2-argument version; here, and for
20            all methods (and help files).
21    
22    2005-12-09  Martin Maechler  <maechler@stat.math.ethz.ch>
23    
24            * R/Auxiliaries.R (dimNamesCheck): fixed thinko -> bug
25                    for case (dimn.  op  no_dimn.)
26    
27    2005-11-14  Douglas Bates  <bates@stat.wisc.edu>
28    
29            * DESCRIPTION (Version): 0.99-2  released to CRAN
30    
31    2005-10-21  Douglas Bates  <bates@stat.wisc.edu>
32    
33            * R/lmer.R (simulate method): Fixed a drop=FALSE problem reported
34            by Julian Faraway.
35    
36    2005-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
37    
38            * R/Auxiliaries.R (try_as): new utility
39            * R/sparseMatrix.R: use try_as() in coercion to original class
40    
41    2005-09-30  Martin Maechler  <maechler@stat.math.ethz.ch>
42    
43            * src/dgCMatrix.c (double_to_csc): and dgeMatrix_to_csc()
44    
45    2005-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
46    
47            * R/Auxiliaries.R (dimNamesCheck): added
48    
49            * R/Matrix.R (as.array), (as.vector): new
50    
51    2005-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
52    
53            * R/Matrix.R (Matrix): get logical argument 'sparse' with a smart
54                    default.
55            * R/AllClass.R: move 'factors' slot toplevel "Matrix";
56                    "pMatrix" now contains "sparseMatrix"
57    
58    2005-09-26  Martin Maechler  <maechler@stat.math.ethz.ch>
59    
60            * tests/Class+Meth.R: new tests; t(t(m)) == m
61    
62            * src/dtCMatrix.c (tsc_transpose): add forgotten "diag" slot
63    
64            * src/dsTMatrix.c (dsTMatrix_as_dsCMatrix): bad typo (segfault!)
65            * src/dtTMatrix.c (dtTMatrix_as_dtCMatrix): new
66    
67            * R/dspMatrix.R: typo in "t" method
68    
69    2005-09-18  Douglas Bates  <bates@wisc.edu>
70    
71            * R/AllClass.R (TsparseMatrix), CsparseM* and RsparseM*
72            * R/Tsparse.R: instead of R/gTMatrix.R
73            * R/Csparse.R: new
74            * src/Tsparse.c (Tsparse_to_Csparse): new; -> cholmod_()
75            * src/Tsparse.c: new; many trivial methods calling cholmod_()
76            * src/Csparse.c (Csparse_to_Tsparse), transpose, (mat|cross)prod:
77                            via cholmod
78    
79    2005-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
80    
81            * R/Auxiliaries.R (non0ind): new function using new C code
82            * src/dgCMatrix.c (compressed_non_0_ij): new utility
83    
84    2005-09-15  Douglas Bates  <bates@localhost.localdomain>
85    
86            * src/chm_common.h: header file required by all C sources that
87            call CHOLMOD functions.  It defines a cholmod_common structure
88            called 'c' whose address is passed as the last argument to
89            (virtually) every CHOLMOD function.
90    
91            * src/Pattern.c: Simple example of the use of CHOLMOD.
92    
93            * src/init.c: initialize and finalize the cholmod_common structure.
94    
95            * src/Makefile: Added source packages CHOLMOD UMFPACK AMD COLAMD
96            LDL and CCOLAMD from the U. of Florida sparse matrix library.
97    
98    2005-09-08  Martin Maechler  <maechler@stat.math.ethz.ch>
99    
100            * inst/test-tools.R: new file collecting the utility functions used
101                    in ./tests/*.R
102    
103            * R/ddenseMatrix.R (cbind2): new methods for "numeric" and "matrix"
104            * R/Matrix.R (cbind2): methods for NULL and missing
105    
106    2005-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
107    
108            * R/AllClass.R: new "index" class for "[" and "[<-":
109                    First cut at "symmetricMatrix" and "triangularMatrix"
110            * R/gTMatrix.R (.ind.prep): new function;
111                    Logical and character indexing now work too.
112            * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
113            * tests/indexing.R: new, including *.Rout.save
114            * tests/dgTMatrix.R: new
115    
116    2005-08-29  Douglas Bates  <bates@wisc.edu>
117    
118            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
119            indicator pos not being updated.  Also enforced upper triangular
120            for symmetric case.  Need to coerce edges component of elements of
121            edge list - grr! (Why don't they define their classes cleanly?)
122    
123    2005-08-26  Martin Maechler  <maechler@stat.math.ethz.ch>
124    
125            * R/Matrix.R:  added first "[<-" methods; not yet functional
126            * R/denseMatrix.R: dito
127            * man/Subassign-methods.Rd: new help file for these
128    
129    2005-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
130    
131            * DESCRIPTION (Version): 0.98-6
132    
133            * R/denseMatrix.R: new file for "[" fallback methods for all dense
134            matrices.
135    
136    2005-08-19  Martin Maechler  <maechler@stat.math.ethz.ch>
137    
138            * src/lgCMatrix.c (lcsc_to_matrix): new; need for
139                    as( <logical>, "matrix")
140    
141            * R/pMatrix.R: coercion to "lgTMatrix"
142    
143            * R/gTMatrix.R: new virtual class to define "[" methods for.
144            * man/gTMatrix-class.Rd:
145            * General slight re-organization of where "[" methods are defined.
146              more to come.
147    
148    2005-08-18  Douglas Bates  <bates@wisc.edu>
149    
150            * DESCRIPTION (Version): 0.98-5  released to CRAN
151    
152            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
153            * .....
154    
155    2005-08-18  Douglas Bates  <bates@localhost.localdomain>
156    
157            * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
158            or glmer objects.
159    
160    2005-08-17  Martin Maechler  <maechler@stat.math.ethz.ch>
161    
162            * DESCRIPTION (Version): 0.98-4 : upload to CRAN
163    
164    2005-08-16  Douglas Bates  <bates@localhost.localdomain>
165    
166            * R/HBMM.R: finish re-writing R-only code.
167    
168    2005-08-15  Douglas Bates  <bates@localhost.localdomain>
169    
170            * man/externalFormats.Rd: move documentation for writeHB and
171            writeMM here.
172    
173            * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
174            (suggested by Paul Roecker).
175    
176            * tests/validObj.R (assertError): Comment out test that is failing
177            after recent changes in r-devel.
178    
179    
180  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>
181    
182          * R/AllClass.R: intermediate virtual class "denseMatrix"          * R/AllClass.R: intermediate virtual class "denseMatrix"

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