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Annotation of /pkg/ChangeLog

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Revision 886 - (view) (download)

1 : maechler 886 2005-08-31 Martin Maechler <maechler@stat.math.ethz.ch>
2 :    
3 :     * R/AllClass.R: new "index" class for "[" and "[<-":
4 :     First cut at "symmetricMatrix" and "triangularMatrix"
5 :     * R/gTMatrix.R (.ind.prep): new function;
6 :     Logical and character indexing now work too.
7 :     * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
8 :     * tests/indexing.R: new, including *.Rout.save
9 :     * tests/dgTMatrix.R: new
10 :    
11 : bates 876 2005-08-29 Douglas Bates <bates@wisc.edu>
12 :    
13 :     * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
14 :     indicator pos not being updated. Also enforced upper triangular
15 :     for symmetric case. Need to coerce edges component of elements of
16 :     edge list - grr! (Why don't they define their classes cleanly?)
17 :    
18 : maechler 871 2005-08-26 Martin Maechler <maechler@stat.math.ethz.ch>
19 :    
20 :     * R/Matrix.R: added first "[<-" methods; not yet functional
21 :     * R/denseMatrix.R: dito
22 :     * man/Subassign-methods.Rd: new help file for these
23 :    
24 :     2005-08-25 Martin Maechler <maechler@stat.math.ethz.ch>
25 :    
26 :     * DESCRIPTION (Version): 0.98-6
27 :    
28 :     * R/denseMatrix.R: new file for "[" fallback methods for all dense
29 :     matrices.
30 :    
31 : maechler 868 2005-08-19 Martin Maechler <maechler@stat.math.ethz.ch>
32 :    
33 :     * src/lgCMatrix.c (lcsc_to_matrix): new; need for
34 :     as( <logical>, "matrix")
35 :    
36 :     * R/pMatrix.R: coercion to "lgTMatrix"
37 :    
38 :     * R/gTMatrix.R: new virtual class to define "[" methods for.
39 :     * man/gTMatrix-class.Rd:
40 :     * General slight re-organization of where "[" methods are defined.
41 :     more to come.
42 :    
43 : maechler 871 2005-08-18 Douglas Bates <bates@wisc.edu>
44 : maechler 868
45 : maechler 871 * DESCRIPTION (Version): 0.98-5 released to CRAN
46 :    
47 :     * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
48 :     * .....
49 :    
50 : bates 863 2005-08-18 Douglas Bates <bates@localhost.localdomain>
51 :    
52 :     * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
53 :     or glmer objects.
54 :    
55 : maechler 860 2005-08-17 Martin Maechler <maechler@stat.math.ethz.ch>
56 :    
57 :     * DESCRIPTION (Version): 0.98-4 : upload to CRAN
58 :    
59 :     2005-08-16 Douglas Bates <bates@localhost.localdomain>
60 :    
61 :     * R/HBMM.R: finish re-writing R-only code.
62 :    
63 : bates 854 2005-08-15 Douglas Bates <bates@localhost.localdomain>
64 :    
65 :     * man/externalFormats.Rd: move documentation for writeHB and
66 :     writeMM here.
67 :    
68 :     * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
69 :     (suggested by Paul Roecker).
70 :    
71 :     * tests/validObj.R (assertError): Comment out test that is failing
72 :     after recent changes in r-devel.
73 :    
74 : maechler 860
75 : maechler 848 2005-08-11 Martin Maechler <maechler@stat.math.ethz.ch>
76 :    
77 :     * R/AllClass.R: intermediate virtual class "denseMatrix"
78 :     * man/denseMatrix-class.Rd
79 :     * NAMESPACE: export it, and also export
80 :     * man/unused-classes.Rd: "iMatrix", "zMatrix" and "ldenseMatrix"
81 :    
82 : bates 846 2005-08-10 Douglas Bates <bates@wisc.edu>
83 :    
84 : maechler 848 * DESCRIPTION (Version): 0.98-3 to CRAN
85 :    
86 : bates 846 * src/dtrMatrix.c (dtrMatrix_validate): fixed up validation and
87 :     matrix_solve code (which was really, really wrong).
88 :    
89 : bates 835 2005-08-07 Douglas Bates <bates@wisc.edu>
90 : maechler 834
91 :     * DESCRIPTION (Version): 0.98-2
92 :    
93 :     * R/HBMM.R (readHB), (readMM): read Matrix Market formats
94 :    
95 :     * R/lmer.R (abbrvNms): new
96 :     * R/lmer.R (mcmcsamp): allow transformed parameters
97 : bates 835 * src/HBMM.c (Matrix_writeMatrixMarket): Added read/write routines
98 :     for the Harwell-Boeing and the MatrixMarket formats.
99 : maechler 834
100 :     2005-08-04 Martin Maechler <maechler@stat.math.ethz.ch>
101 :    
102 :     * man/dtrMatrix-class.Rd: add examples
103 : bates 835 * man/dtpMatrix-class.Rd: ditto; plus note about PROBLEM
104 : maechler 834
105 :     * TODO: note the dtpMatrix (docu) bug
106 :    
107 :     * R/zzz.R (.onLoad): assignInNamespace("as.matrix", *, "base")
108 :     in order to ensure that new as.matrix() is used by old functions,
109 :     e.g., svd(), qr(), eigen(), dist(),..;
110 :     apply(), also matplot() or pairs().
111 :    
112 :    
113 :     2005-08-03 Martin Maechler <maechler@stat.math.ethz.ch>
114 :    
115 :     * R/lmer.R: add 'fixme' comments and move the linear vs glm check;
116 :     add comments about 'control' / lmerControl() arguments
117 :    
118 : bates 835 2005-07-27 Douglas Bates <bates@wisc.edu>
119 : bates 820
120 : bates 835 * man/sleepstudy.Rd: Added the sleep data set.
121 : maechler 834 * DESCRIPTION (Version): 0.98-1 released to CRAN
122 : bates 820
123 : bates 835 2005-07-12 Douglas Bates <bates@wisc.edu>
124 : maechler 834 * man/sleepstudy.Rd: Added the sleep data set.
125 :    
126 : bates 809 * R/lmer.R (glmmMCMC): Added PACKAGE = "Matrix" in a couple of
127 :     .Call calls that were producing spurious output.
128 :    
129 : bates 835 2005-07-05 Douglas Bates <bates@wisc.edu>
130 : bates 801
131 :     * R/lmer.R (lmer): stored updated variance component estimates in
132 :     mer object for the generalized model. (Bug reported by Renaud
133 :     Lancelot).
134 :    
135 : bates 835 2005-07-03 Douglas Bates <bates@wisc.edu>
136 : bates 794
137 :     * src/lmer.c (glmer_devAGQ): Added AGQ for single grouping factor,
138 :     unidimensional case.
139 :    
140 : bates 835 2005-06-08 Douglas Bates <bates@wisc.edu>
141 : maechler 791
142 :     * DESCRIPTION (Version): 0.96-1
143 :    
144 :     * moved lmer-class' R and C code moved from lme4 to here
145 :    
146 : bates 835 2005-06-04 Douglas Bates <bates@wisc.edu>
147 : bates 763
148 :     * R/dgCMatrix.R: Call to csc_matrix_mm used undefined arguments
149 :     (reported by Guissepe Ragusa <gragusa@ucsd.edu>)
150 :    
151 : bates 835 2005-06-02 Douglas Bates <bates@wisc.edu>
152 : bates 763
153 :     * src/Makefile.win: Forgot to update this when Makefile changed.
154 :    
155 : bates 835 2005-05-11 Douglas Bates <bates@wisc.edu>
156 : bates 726
157 :     * src/dgCMatrix.c (csc_transpose): Simplified function fixing a
158 :     bug reported by Kurt Hornik and Michael Hahsler.
159 :    
160 : bates 835 2005-05-10 Douglas Bates <bates@wisc.edu>
161 : bates 725
162 :     * src/lgCMatrix.c (Matrix_lgClgCmm): Implementation of methods for
163 :     logical sparse matrices. These will also be used in the symbolic
164 :     analysis for lmer objects.
165 :    
166 :     * src/dsCMatrix.c (dsCMatrix_matrix_solve): Copied the dimensions
167 :     of b to the result. Fixes bug reported by Jean.Coursol@math.u-psud.fr
168 : maechler 791
169 : bates 835 2005-05-06 Douglas Bates <bates@wisc.edu>
170 : bates 714
171 :     * src/dgeMatrix.c (dgeMatrix_colsums): Added an implementation of
172 :     colMeans, colSums, rowMeans and rowSums.
173 :    
174 : bates 835 2005-04-18 Douglas Bates <bates@wisc.edu>
175 : bates 692
176 :     * src/lgCMatrix.[ch]: code for _validate method and stub for
177 :     multiplication operation.
178 :    
179 :     * src/dgeMatrix.c (dgeMatrix_matrix_solve): Passing wrong argument
180 :     to dgetrs.
181 :    
182 :     * src/init.c: Fix cut-and-paste error in definition of
183 :     dgeMatrix_matrix_solve
184 :    
185 :     * src/{many files}: Tighten code by using ALLOC_SLOT.
186 :    
187 : bates 835 2005-04-15 Douglas Bates <bates@wisc.edu>
188 : bates 692
189 :     * R/AllClass.R: Add lgTMatrix and lgCMatrix classes
190 :    
191 :     * DESCRIPTION: Eliminate import of stats.
192 :    
193 : maechler 791
194 : bates 835 2005-04-06 Douglas Bates <bates@wisc.edu>
195 : bates 692
196 :     * R/AllClass.R : add logical sparse matrix classes
197 :    
198 : maechler 687 2005-04-01 Martin Maechler <maechler@stat.math.ethz.ch>
199 :    
200 :     * R/dgTMatrix.R: add "[" method for triplet matrices
201 :     * R/sparseMatrix.R: and other sparse ones; --> add show() for sparse
202 :    
203 : bates 835 2005-03-31 Douglas Bates <bates@wisc.edu>
204 : maechler 687
205 :     * DESCRIPTION (Version): release 0.95-5 to CRAN
206 :    
207 :     * R/dMatrix.R: add %*%, crossprod and solve "fallback" methods
208 :     * R/sparseMatrix.R: %*%, crossprod()
209 :     * R/dgeMatrix.R: more "fallback" methods for numeric/dense matrices
210 :     * man/*.Rd: move method definitions to 'Matrix' and 'dMatrix'
211 :     * src/lmer.c (lmer_fitted): fix thinko
212 :    
213 : maechler 676 2005-03-26 Martin Maechler <maechler@stat.math.ethz.ch>
214 :    
215 :     * R/AllClass.R: add two virtual sparse classes ``on top''
216 :    
217 :     2005-03-24 Martin Maechler <maechler@stat.math.ethz.ch>
218 :    
219 :     * R/AllClass.R (setClass): use "VIRTUAL" for the virtual classes;
220 :     correspondingly fix examples and tests/ since new()
221 :     doesn't work for virtual classes.
222 :    
223 : maechler 658 2005-03-17 Martin Maechler <maechler@stat.math.ethz.ch>
224 :    
225 :     * R/Matrix.R (as.matrix): method and one for unname()
226 :     * tests/dpoMatrix.R: tests should now be less platform dependent;
227 :     also run for R 2.1.0; using as.matrix()
228 :    
229 : bates 835 2005-03-15 Douglas Bates <bates@wisc.edu>
230 : maechler 658
231 :     * R/pMatrix.R: "pMatrix" class added
232 :     * ....
233 :    
234 : bates 835 2005-03-14 Douglas Bates <bates@wisc.edu>
235 : bates 645
236 :     * R/dtpMatrix.R: Add unpack method and an example.
237 :    
238 :     * src/dsyMatrix.c (dsyMatrix_trf): Add BunchKaufman factorization
239 :     of general symmetric matrices and associated S4 methods.
240 :    
241 : maechler 658 2005-03-10 Martin Maechler <maechler@stat.math.ethz.ch>
242 :     +
243 :     2005-03-05 Martin Maechler <maechler@stat.math.ethz.ch>
244 :    
245 :     * R/dgeMatrix.R (setAs): and many other files: more coercion,
246 :     crossprod() and "%*%" methods added; tests, too.
247 :     * tests/matprod.R: new, for testing these
248 :    
249 : bates 835 2005-03-03 Douglas Bates <bates@wisc.edu>
250 : bates 599
251 :     * src/lmer.c (lmer_fitted): Added.
252 :    
253 : bates 835 2005-03-02 Douglas Bates <bates@wisc.edu>
254 : bates 596
255 :     * R/dsTMatrix.R: Conversion from dsTMatrix to dsCMatrix
256 :    
257 : bates 835 2005-02-28 Douglas Bates <bates@wisc.edu>
258 : bates 582
259 :     * src/*.c,po/,inst/po: Internationalization and localization of
260 :     the package.
261 :    
262 :     * src/ldl.[ch]: Removed these as their contents are referenced in the
263 :     R_ldl.c file.
264 :    
265 :     * src/flame.[ch]: Removed these source files.
266 : maechler 658
267 : bates 582 * src/dtrMatrix.c (make_array_triangular): Move to Mutils
268 :    
269 :     * src/LU.[ch],src/init.c: absorb in factorizations
270 :    
271 :     * src/Mutils.h: prepare for internationalization
272 :    
273 :     * src/cblas.h: move the enum definitions to Mutils.h and remove
274 :     this file
275 :    
276 : maechler 578 2005-02-26 Martin Maechler <maechler@stat.math.ethz.ch>
277 :    
278 : maechler 579 * R/dgeMatrix.R: provide "dimnames" and "dimnames<-" methods
279 :    
280 :     * R/dtrMatrix.R: fix t() method
281 :    
282 : maechler 578 * R/dgeMatrix.R: define group methods "Arith", "Math", "Math2"
283 : maechler 658 * NAMESPACE: export them (and import generics from "methods")
284 : maechler 578 * tests/group-methods.R : and test them.
285 :    
286 :     * src/dtrMatrix.c (dtrMatrix_as_dgeMatrix): prevent seg.fault in
287 :     border case
288 :    
289 :     2005-02-24 Douglas Bates <bates@stat.wisc.edu>
290 :    
291 : maechler 658 * DESCRIPTION (Version): 0.95-2 released to CRAN
292 : maechler 578
293 :     * src/dgBCMatrix.c:
294 :     * src/lmer.c: many changes
295 :     * ...
296 :    
297 : maechler 512 2005-02-04 Martin Maechler <maechler@stat.math.ethz.ch>
298 :    
299 :     * R/Matrix.R: add more sophisticated show() method.
300 :    
301 : maechler 578 2005-02-02 Douglas Bates <bates@stat.wisc.edu>
302 :    
303 :     * */* : almost complete reorganization of classes.
304 :    
305 : bates 835 2005-01-26 Douglas Bates <bates@wisc.edu>
306 : bates 460
307 :     * R/AllGeneric.R: Added matrix exponential generic expm and a method
308 :     for the geMatrix class.
309 :    
310 : bates 835 2005-01-24 Douglas Bates <bates@wisc.edu>
311 : bates 460
312 :     * src/Makefile (clean): Remove *.a and *.so
313 :    
314 :     * man/cscBlocked-class.Rd: Remove reference to the lmer-class.
315 :    
316 : bates 835 2005-01-23 Douglas Bates <bates@wisc.edu>
317 : bates 460
318 : maechler 658 * src/lmer.c (Lind): Definition of Lind was backwards. This only
319 : bates 460 had an effect in cases with more than 2 grouping factors.
320 :    
321 : bates 835 2005-01-03 Douglas Bates <bates@wisc.edu>
322 : bates 415
323 :     * src/lmeRep.c (lmer_variances): change from lmeRep to lmer
324 :    
325 : bates 835 2004-12-23 Douglas Bates <bates@wisc.edu>
326 : bates 410
327 :     * src/init.c (R_init_Matrix): Reorder calls to R_registerRoutines
328 :     and R_useDynamicSymbols (suggested by B.D.Ripley).
329 :    
330 : bates 835 2004-12-14 Douglas Bates <bates@wisc.edu>
331 : bates 392
332 :     * R/sscMatrix.R: Add determinant methods
333 :    
334 :     * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion
335 :     for tripletMatrix to matrix.
336 :    
337 : bates 835 2004-12-13 Douglas Bates <bates@wisc.edu>
338 : bates 388
339 : bates 392 * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is
340 :     no longer used.
341 :    
342 : bates 388 * src/R_ldl.c: Created an R-specific version of the ldl.[ch] files
343 :     with dynamic allocation of scratch arrays.
344 :    
345 :     * src/ssclme.c (ssclme_copy_ctab): Fixed bug in creation of ZtZ
346 :     for multivariate random effects with multiple grouping factors.
347 :     Fixes part but not all of #15.
348 :    
349 : bates 835 2004-12-03 Douglas Bates <bates@wisc.edu>
350 : bates 375
351 :     * src/lmeRep.c (lmeRep_factor): order of operations for multiple
352 :     scalar grouping factors corrected.
353 :    
354 : bates 835 2004-11-29 Douglas Bates <bates@wisc.edu>
355 : bates 375
356 :     * src/bCrosstab.c: remove diag_update which is no longer used
357 :    
358 : bates 835 2004-11-16 Douglas Bates <bates@wisc.edu>
359 : bates 350
360 :     * src/Metis_utils.c: Move metis.h include to C sources so that the
361 :     .h file can be included.
362 :    
363 : bates 835 2004-11-12 Douglas Bates <bates@wisc.edu>
364 : bates 342
365 : bates 350 * src/LU.c,geMatrix.c,trMatrix.c, etc.:
366 : bates 342 Complete allocation of slots in NEW_OBJECT.
367 :    
368 :     * src/Mutils.h: Moved list of symbols to an include file
369 :    
370 : bates 835 2004-11-11 Douglas Bates <bates@wisc.edu>
371 : bates 342
372 :     * src/geMutils.c (Matrix_init): remove unused function
373 :    
374 : bates 835 2004-11-10 Douglas Bates <bates@wisc.edu>
375 : bates 342
376 :     * src/cscMatrix.c (csc_to_imagemat): removed unused function
377 :    
378 : bates 835 2004-11-05 Douglas Bates <bates@wisc.edu>
379 : bates 327
380 :     * src/Makefile.win (SOURCES_C): Keep consistent with Makefile
381 :    
382 : bates 835 2004-10-27 Douglas Bates <bates@wisc.edu>
383 : bates 303
384 :     * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls
385 :    
386 : bates 835 2004-10-04 Douglas Bates <bates@wisc.edu>
387 : bates 296
388 :     * src/init.c: Created R_init_Matrix and added registration of C
389 :     routines.
390 :    
391 : bates 835 2004-10-02 Douglas Bates <bates@wisc.edu>
392 : bates 283
393 :     * R/tripletMatrix.R: Force a require(lattice) for the image methods.
394 :    
395 : bates 835 2004-06-15 Douglas Bates <bates@wisc.edu>
396 : bates 229
397 :     * man/trMatrix-class.Rd: Escape the % chars in .Rd files.
398 :    
399 : bates 111 2004-04-20 Douglas Bates <bates@stat.wisc.edu>
400 :    
401 :     * src/Makefile.win ($(SHLIB)): Modifications per Uwe Ligges.
402 :    
403 : bates 109 2004-04-19 Douglas Bates <bates@stat.wisc.edu>
404 :    
405 :     * src/ssclme.c (ssclme_update_mm): fix logic error in
406 :     ssclme_update_mm
407 :    
408 : bates 105 2004-04-18 Douglas Bates <bates@stat.wisc.edu>
409 :    
410 :     * src/ssclme.c (ssclme_coef, ssclme_coefGets): Create consistency
411 :     in the order of unconstrained and constrained parameters.
412 :     (ssclme_gradient): Added the gradients (not yet correct for
413 :     multidimensional, unconstrained case).
414 :    
415 : bates 78 2004-04-14 Douglas Bates <bates@stat.wisc.edu>
416 :    
417 :     * src/ssclme.c (ssclme_EMsteps): Fix logic in REML update
418 :    
419 :     * src/Makefile.win: Remove unneeded ranlib call
420 :    
421 : bates 71 2004-04-12 Douglas Bates <bates@stat.wisc.edu>
422 :    
423 :     * DESCRIPTION (Version): New release
424 :    
425 :     * src/Makefile.win: Update Makefile.win to umfpack removal.
426 :    
427 : bates 49 2004-04-05 Douglas Bates <bates@bates2_home>
428 :    
429 :     * src/triplet_to_col.c: Create triplet_to_col as a native
430 : maechler 658 function, not the version from umfpack. There were problems with
431 : bates 49 the configuration of UMFPACK for 64-bit processors and there was
432 :     only one umfpack routine being used so I moved it here.
433 :    
434 : bates 45 2004-04-04 Douglas Bates <bates@bates2_home>
435 :    
436 :     * src/ssclme.c (ssclme_variances): New function.
437 :    
438 : bates 28 2004-03-28 Douglas Bates <bates@bates2_home>
439 :    
440 :     * src/ssclme.c (ssclme_fitted): Added function.
441 :    
442 : bates 22 2004-03-27 Douglas Bates <bates@bates2_home>
443 :    
444 :     * src/ssclme.c (ssclme_transfer_dimnames): Add new function to
445 :     store the dimnames in the XtX and bVar slots
446 :     (ssclme_update_mm): Change the dimensions of the bVar slot
447 :     components and the returned value from ssclme_ranef.
448 :    
449 : bates 10 2004-03-18 Douglas Bates <bates@stat.wisc.edu>
450 :    
451 :     * R/{pdMat.R,pdIdent.R,pdLogChol.R,pdMatrixLog.R,pdNatural.R},
452 :     src/{pdMat.c,pdIdent.c,pdLogChol.c,pdNatural.c},
453 :     tests/{pdCompSymm.R,pdDiag.R,pdIdent.R,pdLogChol.R,pdNatural.R},
454 :     man/{pdMat-class.Rd,pdmatrix-class.Rd,corrmatrix-class.Rd,
455 :     pdDiag-class.Rd,pdIdent-class.Rd,pdNatural-class.Rd,
456 :     pdLogChol-class.Rd,coefGets.Rd,pdCompSymm-class.Rd,
457 :     pdfactor-class.Rd,pdFactor.Rd,pdMatrix.Rd,
458 :     pdBlocked-class.Rd},AllClass.R,AllGeneric.R:
459 :     Moved the pdMat classes from the lme4 package.
460 :    
461 :     2004-03-02 Douglas Bates <bates@stat.wisc.edu>
462 :    
463 :     * man/ssclme-class.Rd: Update definition and documentation of the
464 :     ssclme class to include the DIsqrt slot.
465 :    
466 :     * src/ssclme.c (ssclme_deviance): Modify order of computation
467 :     (much faster using dsyrk, a level 3 BLAS routine).
468 :    
469 :     * src/Makefile (SUBLIBS): Change definition (K. Hornik)
470 :    
471 :     2004-02-28 Douglas Bates <bates@stat.wisc.edu>
472 :    
473 :     * tests/ssclme.R: Modify the test to account for the permutation
474 :     of the levels of the grouping factors.
475 :    
476 :     2004-02-23 Douglas Bates <bates@stat.wisc.edu>
477 :    
478 :     * R/ssclme.R,src/ssclme.c (ssclme): Move slots of sscCrosstab slot
479 :     directly into the ssclme class definition.
480 :    
481 :     2004-02-22 Douglas Bates <bates@stat.wisc.edu>
482 :    
483 :     * DESCRIPTION (Date): New release
484 :    
485 :     * man/ssclme-class.Rd: new file.
486 :    
487 :     * src/ssclme.c (ssclme_loglik): major revisions in design. It
488 :     works and it's fast!
489 :    
490 :     2004-02-17 Douglas Bates <bates@stat.wisc.edu>
491 :    
492 :     * src/taucs/Makefile.win (lib): Change "ar" to "$(AR)" (B.Ripley)
493 :    
494 :     2004-02-16 Douglas Bates <bates@stat.wisc.edu>
495 :    
496 :     * DESCRIPTION (Date): New release
497 :    
498 :     * NAMESPACE: Don't export ssclme.
499 :    
500 :     * data/ScotsSec.rda, man/ScotsSec.Rd: Add Scottish secondary
501 :     school data.
502 :    
503 :     2004-02-11 Douglas Bates <bates@stat.wisc.edu>
504 :    
505 :     * src/sscCrosstab.c (sscCrosstab): Added a row to the incidence to
506 :     keep track of the fixed-effects and the response. Counts also
507 :     gets an extra element, which is always one.
508 :    
509 :     * src/ldl.c: Include these routines from Tim Davis' LDL package.
510 :    
511 :     2004-02-10 Douglas Bates <bates@stat.wisc.edu>
512 :    
513 :     * src/cscMatrix.c (csc_transpose): new function
514 :    
515 :     * src/Mutils.c (csc_sort_columns): perm/iperm confusion corrected
516 :     (csc_components_transpose): new function
517 :    
518 :     2004-02-06 Douglas Bates <bates@stat.wisc.edu>
519 :    
520 :     * src/triplet.c (triplet_validate): Fix Dim slot on generated
521 :     triplets
522 :    
523 :     2004-01-30 Douglas Bates <bates@stat.wisc.edu>
524 :    
525 :     * R/sscCrosstab.R (sscCrosstab): Added sscCrosstab generator function.
526 :    
527 :     * src/LU.h (MATRIX_LU_H): Add #ifndef #define ... #endif to this
528 :     and all other .h files in src.
529 :    
530 :     * src/Makefile.win: This and other Makefile.win files contributed
531 :     by Brian Ripley.
532 :    
533 :     2004-01-27 Douglas Bates <bates@stat.wisc.edu>
534 :    
535 :     * R/syMatrix.R: Added methods for "%*%".
536 :    
537 :     * R/Hilbert.R (Hilbert): Changed Hilbert function to return a
538 :     poMatrix object.
539 :    
540 :     2004-01-26 Douglas Bates <bates@stat.wisc.edu>
541 :    
542 :     * man/sscChol-class.Rd,man/mm.Rd,man/y.Rd: Added man pages.
543 :    
544 :     2004-01-25 Douglas Bates <bates@bates2_home>
545 :    
546 :     * inst/doc/Introduction.Rnw,Comparisons.Rnw: Added vignettes.
547 :    
548 :     * R/csc.R: Convert all cscMatrix classes to use Dim slot instead
549 :     of nrow.
550 :    
551 :     2003-12-31 Douglas Bates <bates@stat.wisc.edu>
552 :    
553 :     * src/taucs/taucs.h: Moved taucs.h, amd.h, and umfpack.h into
554 :     subdirectories.
555 :    
556 :     2003-12-08 Douglas Bates <bates@stat.wisc.edu>
557 :    
558 :     * src/taucs.h: Accidently referred to global header files
559 :     instead of local files.
560 :    
561 :     2003-12-04 Douglas Bates <bates@stat.wisc.edu>
562 :    
563 :     * R/AllClass.R: Lots of changes. Removed all the lapack++ code
564 :     and methods and replaced all classes with S4 classes.
565 :    
566 :     2003-04-19 Douglas Bates <bates@stat.wisc.edu>
567 :    
568 :     * R/det.R,man/det.Rd: Change name of det generic to determinant
569 :    
570 :     * src/R_LapackPP.cc: Change method of calculating determinants
571 :    
572 :     2003-02-03 Douglas Bates <bates@stat.wisc.edu>
573 :    
574 :     * DESCRIPTION (Version): removed empty data directory as requested
575 :     by CRAN maintainers. Changed version number and date.
576 :    
577 :     2002-10-23 Douglas Bates <bates@stat.wisc.edu>
578 :    
579 :     * src/laindex.h: Applied patches from Brian Ripley for compilation
580 :     under Windows.
581 :    
582 :     * Added configure.win and src/Makevars.win as requested by Brian
583 :     Ripley.
584 :    
585 :     2002-05-03 Douglas Bates <bates@stat.wisc.edu>
586 :    
587 :     * src/lamatrix.h: Removing pre-1.2.0 compatibility code per Kurt
588 :     Hornik.
589 :    
590 :     2002-04-24 Douglas Bates <bates@stat.wisc.edu>
591 :    
592 :     * configure.ac: Replaced configure.in with configure.ac
593 :     contributed by Kurt Hornik.
594 :    
595 :     * aclocal.m4 (ac_clean_files): Replaced this with Kurt Hornik's
596 :     version for R-1.5.0
597 :    
598 : maechler 512
599 : bates 10 2001-12-10 Douglas Bates <bates@stat.wisc.edu>
600 :    
601 :     * man/eigen.Rd: Removed the .Alias in the example

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