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Annotation of /pkg/ChangeLog

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Revision 512 - (view) (download)

1 : maechler 512 2005-02-04 Martin Maechler <maechler@stat.math.ethz.ch>
2 :    
3 :     * R/Matrix.R: add more sophisticated show() method.
4 :    
5 : bates 460 2005-01-26 Douglas Bates <bates@bates7>
6 :    
7 :     * R/AllGeneric.R: Added matrix exponential generic expm and a method
8 :     for the geMatrix class.
9 :    
10 :     2005-01-24 Douglas Bates <bates@bates7>
11 :    
12 :     * src/Makefile (clean): Remove *.a and *.so
13 :    
14 :     * man/cscBlocked-class.Rd: Remove reference to the lmer-class.
15 :    
16 :     2005-01-23 Douglas Bates <bates@bates7>
17 :    
18 :     * src/lmer.c (Lind): Definition of Lind was backwards. This only
19 :     had an effect in cases with more than 2 grouping factors.
20 :    
21 : bates 415 2005-01-03 Douglas Bates <bates@bates1-home>
22 :    
23 :     * src/lmeRep.c (lmer_variances): change from lmeRep to lmer
24 :    
25 : bates 410 2004-12-23 Douglas Bates <bates@bates1-home>
26 :    
27 :     * src/init.c (R_init_Matrix): Reorder calls to R_registerRoutines
28 :     and R_useDynamicSymbols (suggested by B.D.Ripley).
29 :    
30 : bates 392 2004-12-14 Douglas Bates <bates@bates1-home>
31 :    
32 :     * R/sscMatrix.R: Add determinant methods
33 :    
34 :     * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion
35 :     for tripletMatrix to matrix.
36 :    
37 : bates 388 2004-12-13 Douglas Bates <bates@bates1-home>
38 :    
39 : bates 392 * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is
40 :     no longer used.
41 :    
42 : bates 388 * src/R_ldl.c: Created an R-specific version of the ldl.[ch] files
43 :     with dynamic allocation of scratch arrays.
44 :    
45 :     * src/ssclme.c (ssclme_copy_ctab): Fixed bug in creation of ZtZ
46 :     for multivariate random effects with multiple grouping factors.
47 :     Fixes part but not all of #15.
48 :    
49 : bates 375 2004-12-03 Douglas Bates <bates@bates1-home>
50 :    
51 :     * src/lmeRep.c (lmeRep_factor): order of operations for multiple
52 :     scalar grouping factors corrected.
53 :    
54 :     2004-11-29 Douglas Bates <bates@bates1-home>
55 :    
56 :     * src/bCrosstab.c: remove diag_update which is no longer used
57 :    
58 : bates 350 2004-11-16 Douglas Bates <bates@bates1-home>
59 :    
60 :     * src/Metis_utils.c: Move metis.h include to C sources so that the
61 :     .h file can be included.
62 :    
63 : bates 342 2004-11-12 Douglas Bates <bates@bates1-home>
64 :    
65 : bates 350 * src/LU.c,geMatrix.c,trMatrix.c, etc.:
66 : bates 342 Complete allocation of slots in NEW_OBJECT.
67 :    
68 :     * src/Mutils.h: Moved list of symbols to an include file
69 :    
70 :     2004-11-11 Douglas Bates <bates@bates1-home>
71 :    
72 :     * src/geMutils.c (Matrix_init): remove unused function
73 :    
74 :     2004-11-10 Douglas Bates <bates@bates1-home>
75 :    
76 :     * src/cscMatrix.c (csc_to_imagemat): removed unused function
77 :    
78 : bates 327 2004-11-05 Douglas Bates <bates@bates1-home>
79 :    
80 :     * src/Makefile.win (SOURCES_C): Keep consistent with Makefile
81 :    
82 : bates 303 2004-10-27 Douglas Bates <bates@bates1-home>
83 :    
84 :     * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls
85 :    
86 : bates 296 2004-10-04 Douglas Bates <bates@bates1-home>
87 :    
88 :     * src/init.c: Created R_init_Matrix and added registration of C
89 :     routines.
90 :    
91 : bates 283 2004-10-02 Douglas Bates <bates@bates1-home>
92 :    
93 :     * R/tripletMatrix.R: Force a require(lattice) for the image methods.
94 :    
95 : bates 229 2004-06-15 Douglas Bates <bates@bates7>
96 :    
97 :     * man/trMatrix-class.Rd: Escape the % chars in .Rd files.
98 :    
99 : bates 111 2004-04-20 Douglas Bates <bates@stat.wisc.edu>
100 :    
101 :     * src/Makefile.win ($(SHLIB)): Modifications per Uwe Ligges.
102 :    
103 : bates 109 2004-04-19 Douglas Bates <bates@stat.wisc.edu>
104 :    
105 :     * src/ssclme.c (ssclme_update_mm): fix logic error in
106 :     ssclme_update_mm
107 :    
108 : bates 105 2004-04-18 Douglas Bates <bates@stat.wisc.edu>
109 :    
110 :     * src/ssclme.c (ssclme_coef, ssclme_coefGets): Create consistency
111 :     in the order of unconstrained and constrained parameters.
112 :     (ssclme_gradient): Added the gradients (not yet correct for
113 :     multidimensional, unconstrained case).
114 :    
115 : bates 78 2004-04-14 Douglas Bates <bates@stat.wisc.edu>
116 :    
117 :     * src/ssclme.c (ssclme_EMsteps): Fix logic in REML update
118 :    
119 :     * src/Makefile.win: Remove unneeded ranlib call
120 :    
121 : bates 71 2004-04-12 Douglas Bates <bates@stat.wisc.edu>
122 :    
123 :     * DESCRIPTION (Version): New release
124 :    
125 :     * src/Makefile.win: Update Makefile.win to umfpack removal.
126 :    
127 : bates 49 2004-04-05 Douglas Bates <bates@bates2_home>
128 :    
129 :     * src/triplet_to_col.c: Create triplet_to_col as a native
130 :     function, not the version from umfpack. There were problems with
131 :     the configuration of UMFPACK for 64-bit processors and there was
132 :     only one umfpack routine being used so I moved it here.
133 :    
134 : bates 45 2004-04-04 Douglas Bates <bates@bates2_home>
135 :    
136 :     * src/ssclme.c (ssclme_variances): New function.
137 :    
138 : bates 28 2004-03-28 Douglas Bates <bates@bates2_home>
139 :    
140 :     * src/ssclme.c (ssclme_fitted): Added function.
141 :    
142 : bates 22 2004-03-27 Douglas Bates <bates@bates2_home>
143 :    
144 :     * src/ssclme.c (ssclme_transfer_dimnames): Add new function to
145 :     store the dimnames in the XtX and bVar slots
146 :     (ssclme_update_mm): Change the dimensions of the bVar slot
147 :     components and the returned value from ssclme_ranef.
148 :    
149 : bates 10 2004-03-18 Douglas Bates <bates@stat.wisc.edu>
150 :    
151 :     * R/{pdMat.R,pdIdent.R,pdLogChol.R,pdMatrixLog.R,pdNatural.R},
152 :     src/{pdMat.c,pdIdent.c,pdLogChol.c,pdNatural.c},
153 :     tests/{pdCompSymm.R,pdDiag.R,pdIdent.R,pdLogChol.R,pdNatural.R},
154 :     man/{pdMat-class.Rd,pdmatrix-class.Rd,corrmatrix-class.Rd,
155 :     pdDiag-class.Rd,pdIdent-class.Rd,pdNatural-class.Rd,
156 :     pdLogChol-class.Rd,coefGets.Rd,pdCompSymm-class.Rd,
157 :     pdfactor-class.Rd,pdFactor.Rd,pdMatrix.Rd,
158 :     pdBlocked-class.Rd},AllClass.R,AllGeneric.R:
159 :     Moved the pdMat classes from the lme4 package.
160 :    
161 :     2004-03-02 Douglas Bates <bates@stat.wisc.edu>
162 :    
163 :     * man/ssclme-class.Rd: Update definition and documentation of the
164 :     ssclme class to include the DIsqrt slot.
165 :    
166 :     * src/ssclme.c (ssclme_deviance): Modify order of computation
167 :     (much faster using dsyrk, a level 3 BLAS routine).
168 :    
169 :     * src/Makefile (SUBLIBS): Change definition (K. Hornik)
170 :    
171 :     2004-02-28 Douglas Bates <bates@stat.wisc.edu>
172 :    
173 :     * tests/ssclme.R: Modify the test to account for the permutation
174 :     of the levels of the grouping factors.
175 :    
176 :     2004-02-23 Douglas Bates <bates@stat.wisc.edu>
177 :    
178 :     * R/ssclme.R,src/ssclme.c (ssclme): Move slots of sscCrosstab slot
179 :     directly into the ssclme class definition.
180 :    
181 :     2004-02-22 Douglas Bates <bates@stat.wisc.edu>
182 :    
183 :     * DESCRIPTION (Date): New release
184 :    
185 :     * man/ssclme-class.Rd: new file.
186 :    
187 :     * src/ssclme.c (ssclme_loglik): major revisions in design. It
188 :     works and it's fast!
189 :    
190 :     2004-02-17 Douglas Bates <bates@stat.wisc.edu>
191 :    
192 :     * src/taucs/Makefile.win (lib): Change "ar" to "$(AR)" (B.Ripley)
193 :    
194 :     2004-02-16 Douglas Bates <bates@stat.wisc.edu>
195 :    
196 :     * DESCRIPTION (Date): New release
197 :    
198 :     * NAMESPACE: Don't export ssclme.
199 :    
200 :     * data/ScotsSec.rda, man/ScotsSec.Rd: Add Scottish secondary
201 :     school data.
202 :    
203 :     2004-02-11 Douglas Bates <bates@stat.wisc.edu>
204 :    
205 :     * src/sscCrosstab.c (sscCrosstab): Added a row to the incidence to
206 :     keep track of the fixed-effects and the response. Counts also
207 :     gets an extra element, which is always one.
208 :    
209 :     * src/ldl.c: Include these routines from Tim Davis' LDL package.
210 :    
211 :     2004-02-10 Douglas Bates <bates@stat.wisc.edu>
212 :    
213 :     * src/cscMatrix.c (csc_transpose): new function
214 :    
215 :     * src/Mutils.c (csc_sort_columns): perm/iperm confusion corrected
216 :     (csc_components_transpose): new function
217 :    
218 :     2004-02-06 Douglas Bates <bates@stat.wisc.edu>
219 :    
220 :     * src/triplet.c (triplet_validate): Fix Dim slot on generated
221 :     triplets
222 :    
223 :     2004-01-30 Douglas Bates <bates@stat.wisc.edu>
224 :    
225 :     * R/sscCrosstab.R (sscCrosstab): Added sscCrosstab generator function.
226 :    
227 :     * src/LU.h (MATRIX_LU_H): Add #ifndef #define ... #endif to this
228 :     and all other .h files in src.
229 :    
230 :     * src/Makefile.win: This and other Makefile.win files contributed
231 :     by Brian Ripley.
232 :    
233 :     2004-01-27 Douglas Bates <bates@stat.wisc.edu>
234 :    
235 :     * R/syMatrix.R: Added methods for "%*%".
236 :    
237 :     * R/Hilbert.R (Hilbert): Changed Hilbert function to return a
238 :     poMatrix object.
239 :    
240 :     2004-01-26 Douglas Bates <bates@stat.wisc.edu>
241 :    
242 :     * man/sscChol-class.Rd,man/mm.Rd,man/y.Rd: Added man pages.
243 :    
244 :     2004-01-25 Douglas Bates <bates@bates2_home>
245 :    
246 :     * inst/doc/Introduction.Rnw,Comparisons.Rnw: Added vignettes.
247 :    
248 :     * R/csc.R: Convert all cscMatrix classes to use Dim slot instead
249 :     of nrow.
250 :    
251 :     2003-12-31 Douglas Bates <bates@stat.wisc.edu>
252 :    
253 :     * src/taucs/taucs.h: Moved taucs.h, amd.h, and umfpack.h into
254 :     subdirectories.
255 :    
256 :     2003-12-08 Douglas Bates <bates@stat.wisc.edu>
257 :    
258 :     * src/taucs.h: Accidently referred to global header files
259 :     instead of local files.
260 :    
261 :     2003-12-04 Douglas Bates <bates@stat.wisc.edu>
262 :    
263 :     * R/AllClass.R: Lots of changes. Removed all the lapack++ code
264 :     and methods and replaced all classes with S4 classes.
265 :    
266 :     2003-04-19 Douglas Bates <bates@stat.wisc.edu>
267 :    
268 :     * R/det.R,man/det.Rd: Change name of det generic to determinant
269 :    
270 :     * src/R_LapackPP.cc: Change method of calculating determinants
271 :    
272 :     2003-02-03 Douglas Bates <bates@stat.wisc.edu>
273 :    
274 :     * DESCRIPTION (Version): removed empty data directory as requested
275 :     by CRAN maintainers. Changed version number and date.
276 :    
277 :     2002-10-23 Douglas Bates <bates@stat.wisc.edu>
278 :    
279 :     * src/laindex.h: Applied patches from Brian Ripley for compilation
280 :     under Windows.
281 :    
282 :     * Added configure.win and src/Makevars.win as requested by Brian
283 :     Ripley.
284 :    
285 :     2002-05-03 Douglas Bates <bates@stat.wisc.edu>
286 :    
287 :     * src/lamatrix.h: Removing pre-1.2.0 compatibility code per Kurt
288 :     Hornik.
289 :    
290 :     2002-04-24 Douglas Bates <bates@stat.wisc.edu>
291 :    
292 :     * configure.ac: Replaced configure.in with configure.ac
293 :     contributed by Kurt Hornik.
294 :    
295 :     * aclocal.m4 (ac_clean_files): Replaced this with Kurt Hornik's
296 :     version for R-1.5.0
297 :    
298 : maechler 512
299 : bates 10 2001-12-10 Douglas Bates <bates@stat.wisc.edu>
300 :    
301 :     * man/eigen.Rd: Removed the .Alias in the example

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