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revision 848, Thu Aug 11 07:41:59 2005 UTC revision 1165, Sat Jan 14 23:41:55 2006 UTC
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1    2006-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * src/dgeMatrix.c (dMatrix_validate): new
4            * src/Mutils.c (dense_nonpacked_validate): new
5    
6            * src/dtrMatrix.c (dtrMatrix_validate): improved/fixed
7    
8    
9    2006-01-14  Douglas Bates  <bates@stat.wisc.edu>
10    
11            * R/AllClass.R (compMatrix), (generalMatrix): new virtual classes
12    
13    2006-01-07  Douglas Bates  <bates@stat.wisc.edu>
14    
15            * DESCRIPTION (Version): 0.99-6 released to CRAN
16    
17            * src/dgBCMatrix.c (cscb_trcbsm): Fix due to Peter Dalgaard for
18            segfault in cases with multiple non-nested grouping factors.
19    
20    2006-01-03  Martin Maechler  <maechler@stat.math.ethz.ch>
21    
22            * DESCRIPTION (Version): 0.99-4 to be released to CRAN
23                    (Depends): also on 'utils'
24    
25            * R/AllClass.R (diagonalMatrix): new class with "ddi*" and "ldi*"
26            * R/diagMatrix.R (Diagonal): constructor and methods for
27            diagonal matrices
28    
29            * R/ltTMatrix.R: new "minimal methods"
30    
31    2005-12-12  Martin Maechler  <maechler@stat.math.ethz.ch>
32    
33            * R/AllGeneric.R (tcrossprod): 2-argument version; here, and for
34            all methods (and help files).
35    
36    2005-12-09  Martin Maechler  <maechler@stat.math.ethz.ch>
37    
38            * R/Auxiliaries.R (dimNamesCheck): fixed thinko -> bug
39                    for case (dimn.  op  no_dimn.)
40    
41    2005-11-14  Douglas Bates  <bates@stat.wisc.edu>
42    
43            * DESCRIPTION (Version): 0.99-2  released to CRAN
44    
45    2005-10-21  Douglas Bates  <bates@stat.wisc.edu>
46    
47            * R/lmer.R (simulate method): Fixed a drop=FALSE problem reported
48            by Julian Faraway.
49    
50    2005-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
51    
52            * R/Auxiliaries.R (try_as): new utility
53            * R/sparseMatrix.R: use try_as() in coercion to original class
54    
55    2005-09-30  Martin Maechler  <maechler@stat.math.ethz.ch>
56    
57            * src/dgCMatrix.c (double_to_csc): and dgeMatrix_to_csc()
58    
59    2005-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
60    
61            * R/Auxiliaries.R (dimNamesCheck): added
62    
63            * R/Matrix.R (as.array), (as.vector): new
64    
65    2005-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
66    
67            * R/Matrix.R (Matrix): get logical argument 'sparse' with a smart
68                    default.
69            * R/AllClass.R: move 'factors' slot toplevel "Matrix";
70                    "pMatrix" now contains "sparseMatrix"
71    
72    2005-09-26  Martin Maechler  <maechler@stat.math.ethz.ch>
73    
74            * tests/Class+Meth.R: new tests; t(t(m)) == m
75    
76            * src/dtCMatrix.c (tsc_transpose): add forgotten "diag" slot
77    
78            * src/dsTMatrix.c (dsTMatrix_as_dsCMatrix): bad typo (segfault!)
79            * src/dtTMatrix.c (dtTMatrix_as_dtCMatrix): new
80    
81            * R/dspMatrix.R: typo in "t" method
82    
83    2005-09-18  Douglas Bates  <bates@wisc.edu>
84    
85            * R/AllClass.R (TsparseMatrix), CsparseM* and RsparseM*
86            * R/Tsparse.R: instead of R/gTMatrix.R
87            * R/Csparse.R: new
88            * src/Tsparse.c (Tsparse_to_Csparse): new; -> cholmod_()
89            * src/Tsparse.c: new; many trivial methods calling cholmod_()
90            * src/Csparse.c (Csparse_to_Tsparse), transpose, (mat|cross)prod:
91                            via cholmod
92    
93    2005-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
94    
95            * R/Auxiliaries.R (non0ind): new function using new C code
96            * src/dgCMatrix.c (compressed_non_0_ij): new utility
97    
98    2005-09-15  Douglas Bates  <bates@localhost.localdomain>
99    
100            * src/chm_common.h: header file required by all C sources that
101            call CHOLMOD functions.  It defines a cholmod_common structure
102            called 'c' whose address is passed as the last argument to
103            (virtually) every CHOLMOD function.
104    
105            * src/Pattern.c: Simple example of the use of CHOLMOD.
106    
107            * src/init.c: initialize and finalize the cholmod_common structure.
108    
109            * src/Makefile: Added source packages CHOLMOD UMFPACK AMD COLAMD
110            LDL and CCOLAMD from the U. of Florida sparse matrix library.
111    
112    2005-09-08  Martin Maechler  <maechler@stat.math.ethz.ch>
113    
114            * inst/test-tools.R: new file collecting the utility functions used
115                    in ./tests/*.R
116    
117            * R/ddenseMatrix.R (cbind2): new methods for "numeric" and "matrix"
118            * R/Matrix.R (cbind2): methods for NULL and missing
119    
120    2005-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
121    
122            * R/AllClass.R: new "index" class for "[" and "[<-":
123                    First cut at "symmetricMatrix" and "triangularMatrix"
124            * R/gTMatrix.R (.ind.prep): new function;
125                    Logical and character indexing now work too.
126            * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
127            * tests/indexing.R: new, including *.Rout.save
128            * tests/dgTMatrix.R: new
129    
130    2005-08-29  Douglas Bates  <bates@wisc.edu>
131    
132            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
133            indicator pos not being updated.  Also enforced upper triangular
134            for symmetric case.  Need to coerce edges component of elements of
135            edge list - grr! (Why don't they define their classes cleanly?)
136    
137    2005-08-26  Martin Maechler  <maechler@stat.math.ethz.ch>
138    
139            * R/Matrix.R:  added first "[<-" methods; not yet functional
140            * R/denseMatrix.R: dito
141            * man/Subassign-methods.Rd: new help file for these
142    
143    2005-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
144    
145            * DESCRIPTION (Version): 0.98-6
146    
147            * R/denseMatrix.R: new file for "[" fallback methods for all dense
148            matrices.
149    
150    2005-08-19  Martin Maechler  <maechler@stat.math.ethz.ch>
151    
152            * src/lgCMatrix.c (lcsc_to_matrix): new; need for
153                    as( <logical>, "matrix")
154    
155            * R/pMatrix.R: coercion to "lgTMatrix"
156    
157            * R/gTMatrix.R: new virtual class to define "[" methods for.
158            * man/gTMatrix-class.Rd:
159            * General slight re-organization of where "[" methods are defined.
160              more to come.
161    
162    2005-08-18  Douglas Bates  <bates@wisc.edu>
163    
164            * DESCRIPTION (Version): 0.98-5  released to CRAN
165    
166            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
167            * .....
168    
169    2005-08-18  Douglas Bates  <bates@localhost.localdomain>
170    
171            * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
172            or glmer objects.
173    
174    2005-08-17  Martin Maechler  <maechler@stat.math.ethz.ch>
175    
176            * DESCRIPTION (Version): 0.98-4 : upload to CRAN
177    
178    2005-08-16  Douglas Bates  <bates@localhost.localdomain>
179    
180            * R/HBMM.R: finish re-writing R-only code.
181    
182    2005-08-15  Douglas Bates  <bates@localhost.localdomain>
183    
184            * man/externalFormats.Rd: move documentation for writeHB and
185            writeMM here.
186    
187            * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
188            (suggested by Paul Roecker).
189    
190            * tests/validObj.R (assertError): Comment out test that is failing
191            after recent changes in r-devel.
192    
193    
194  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>
195    
196          * R/AllClass.R: intermediate virtual class "denseMatrix"          * R/AllClass.R: intermediate virtual class "denseMatrix"

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