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Diff of /pkg/ChangeLog

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revision 848, Thu Aug 11 07:41:59 2005 UTC revision 988, Tue Oct 25 17:39:01 2005 UTC
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1    2005-10-21  Douglas Bates  <bates@stat.wisc.edu>
2    
3            * R/lmer.R (simulate method): Fixed a drop=FALSE problem reported
4            by Julian Faraway.
5    
6    2005-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
7    
8            * R/Auxiliaries.R (try_as): new utility
9            * R/sparseMatrix.R: use try_as() in coercion to original class
10    
11    2005-09-30  Martin Maechler  <maechler@stat.math.ethz.ch>
12    
13            * src/dgCMatrix.c (double_to_csc): and dgeMatrix_to_csc()
14    
15    2005-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
16    
17            * R/Auxiliaries.R (dimNamesCheck): added
18    
19            * R/Matrix.R (as.array), (as.vector): new
20    
21    2005-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
22    
23            * R/Matrix.R (Matrix): get logical argument 'sparse' with a smart
24                    default.
25            * R/AllClass.R: move 'factors' slot toplevel "Matrix";
26                    "pMatrix" now contains "sparseMatrix"
27    
28    2005-09-26  Martin Maechler  <maechler@stat.math.ethz.ch>
29    
30            * tests/Class+Meth.R: new tests; t(t(m)) == m
31    
32            * src/dtCMatrix.c (tsc_transpose): add forgotten "diag" slot
33    
34            * src/dsTMatrix.c (dsTMatrix_as_dsCMatrix): bad typo (segfault!)
35            * src/dtTMatrix.c (dtTMatrix_as_dtCMatrix): new
36    
37            * R/dspMatrix.R: typo in "t" method
38    
39    2005-09-18  Douglas Bates  <bates@wisc.edu>
40    
41            * R/AllClass.R (TsparseMatrix), CsparseM* and RsparseM*
42            * R/Tsparse.R: instead of R/gTMatrix.R
43            * R/Csparse.R: new
44            * src/Tsparse.c (Tsparse_to_Csparse): new; -> cholmod_()
45            * src/Tsparse.c: new; many trivial methods calling cholmod_()
46            * src/Csparse.c (Csparse_to_Tsparse), transpose, (mat|cross)prod:
47                            via cholmod
48    
49    2005-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
50    
51            * R/Auxiliaries.R (non0ind): new function using new C code
52            * src/dgCMatrix.c (compressed_non_0_ij): new utility
53    
54    2005-09-15  Douglas Bates  <bates@localhost.localdomain>
55    
56            * src/chm_common.h: header file required by all C sources that
57            call CHOLMOD functions.  It defines a cholmod_common structure
58            called 'c' whose address is passed as the last argument to
59            (virtually) every CHOLMOD function.
60    
61            * src/Pattern.c: Simple example of the use of CHOLMOD.
62    
63            * src/init.c: initialize and finalize the cholmod_common structure.
64    
65            * src/Makefile: Added source packages CHOLMOD UMFPACK AMD COLAMD
66            LDL and CCOLAMD from the U. of Florida sparse matrix library.
67    
68    2005-09-08  Martin Maechler  <maechler@stat.math.ethz.ch>
69    
70            * inst/test-tools.R: new file collecting the utility functions used
71                    in ./tests/*.R
72    
73            * R/ddenseMatrix.R (cbind2): new methods for "numeric" and "matrix"
74            * R/Matrix.R (cbind2): methods for NULL and missing
75    
76    2005-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
77    
78            * R/AllClass.R: new "index" class for "[" and "[<-":
79                    First cut at "symmetricMatrix" and "triangularMatrix"
80            * R/gTMatrix.R (.ind.prep): new function;
81                    Logical and character indexing now work too.
82            * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
83            * tests/indexing.R: new, including *.Rout.save
84            * tests/dgTMatrix.R: new
85    
86    2005-08-29  Douglas Bates  <bates@wisc.edu>
87    
88            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
89            indicator pos not being updated.  Also enforced upper triangular
90            for symmetric case.  Need to coerce edges component of elements of
91            edge list - grr! (Why don't they define their classes cleanly?)
92    
93    2005-08-26  Martin Maechler  <maechler@stat.math.ethz.ch>
94    
95            * R/Matrix.R:  added first "[<-" methods; not yet functional
96            * R/denseMatrix.R: dito
97            * man/Subassign-methods.Rd: new help file for these
98    
99    2005-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
100    
101            * DESCRIPTION (Version): 0.98-6
102    
103            * R/denseMatrix.R: new file for "[" fallback methods for all dense
104            matrices.
105    
106    2005-08-19  Martin Maechler  <maechler@stat.math.ethz.ch>
107    
108            * src/lgCMatrix.c (lcsc_to_matrix): new; need for
109                    as( <logical>, "matrix")
110    
111            * R/pMatrix.R: coercion to "lgTMatrix"
112    
113            * R/gTMatrix.R: new virtual class to define "[" methods for.
114            * man/gTMatrix-class.Rd:
115            * General slight re-organization of where "[" methods are defined.
116              more to come.
117    
118    2005-08-18  Douglas Bates  <bates@wisc.edu>
119    
120            * DESCRIPTION (Version): 0.98-5  released to CRAN
121    
122            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
123            * .....
124    
125    2005-08-18  Douglas Bates  <bates@localhost.localdomain>
126    
127            * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
128            or glmer objects.
129    
130    2005-08-17  Martin Maechler  <maechler@stat.math.ethz.ch>
131    
132            * DESCRIPTION (Version): 0.98-4 : upload to CRAN
133    
134    2005-08-16  Douglas Bates  <bates@localhost.localdomain>
135    
136            * R/HBMM.R: finish re-writing R-only code.
137    
138    2005-08-15  Douglas Bates  <bates@localhost.localdomain>
139    
140            * man/externalFormats.Rd: move documentation for writeHB and
141            writeMM here.
142    
143            * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
144            (suggested by Paul Roecker).
145    
146            * tests/validObj.R (assertError): Comment out test that is failing
147            after recent changes in r-devel.
148    
149    
150  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>  2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>
151    
152          * R/AllClass.R: intermediate virtual class "denseMatrix"          * R/AllClass.R: intermediate virtual class "denseMatrix"

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