SCM

SCM Repository

[matrix] Annotation of /pkg/ChangeLog
ViewVC logotype

Annotation of /pkg/ChangeLog

Parent Directory Parent Directory | Revision Log Revision Log


Revision 1600 - (view) (download)

1 : maechler 1599 2006-09-29 Martin Maechler <maechler@stat.math.ethz.ch>
2 :    
3 : maechler 1600 * R/Csparse.R (replCmat): improve for missing i / j in non-simple cases
4 :    
5 : maechler 1599 * R/lsTMatrix.R: new files w/ missing methods
6 :     * R/nsTMatrix.R: " 'for completeness'
7 :    
8 :     * tests/Class+Meth.R: a bit less 'not.ok.classes'
9 :    
10 :     * R/Tsparse.R (t): generalized "t" method from "dgT*" to "Tsparse*"
11 :    
12 :    
13 : bates 1595 2006-09-28 Douglas Bates <bates@R-project.org>
14 :    
15 :     * src/dppMatrix.h: Ensure definition of dspMatrix_validate is
16 :     included.
17 :    
18 :     * src/init.c, inst/include/{Matrix.h,Matrix_stubs.h,cholmod.h}:
19 :     Export C-callable functions used in Zt_create in lme4.
20 :    
21 : maechler 1592 2006-09-28 Martin Maechler <maechler@stat.math.ethz.ch>
22 :    
23 :     * DESCRIPTION (Version): 0.9975-1
24 :    
25 :     * tests/simple.R: less checks fail; using NA, found that our
26 :     kronecker() is not base-compatible with NA's.
27 :    
28 :     * R/dMatrix.R: "Compare" method now implemented for all cases
29 :    
30 :     * R/Auxiliaries.R (indTri): == which([lower/upper].tri( * )) new utility
31 :    
32 :     * man/dtpMatrix-class.Rd: mention length of 'x' slot
33 :    
34 :     * src/dtpMatrix.c (dtpMatrix_validate): fix check
35 :     * src/dspMatrix.c (dspMatrix_validate): ditto
36 :    
37 :     * R/dtTMatrix.R (gt2tT): fix ("l" -> "n")
38 :     including coercion to [nl]tTMatrix.
39 :    
40 :     * R/diagMatrix.R (show): print a header line as for other classes.
41 :    
42 :     2006-09-27 Martin Maechler <maechler@stat.math.ethz.ch>
43 :    
44 :     * src/Makefile.win (SUBDIRS): fix typo
45 :    
46 : maechler 1583 2006-09-19 Martin Maechler <maechler@stat.math.ethz.ch>
47 :    
48 :     * DESCRIPTION (Date): ready to release 0.9975-0 to CRAN
49 :    
50 : bates 1577 2006-09-18 Douglas Bates <bates@stat.wisc.edu>
51 :    
52 :     * R/[CT]sparse.R (crossprod and tcrossprod): Handle the cases for x
53 :     symmetric and y missing in R code using %*% (cholmod_aat doesn't
54 :     accept a symmetric matrix).
55 :     * tests/group-methods.R: Uncomment test of crossprod applied to
56 :     lsCMatrix objects.
57 :    
58 : maechler 1575 2006-09-18 Martin Maechler <maechler@stat.math.ethz.ch>
59 :    
60 :     * R/AllClass.R (symmetricMatrix): add validity method (available
61 :     in C for a long time). Many "n..Matrix": drop (wrong) validity arg.
62 :    
63 :     * src/lgCMatrix.c (lgCMatrix_validate): check 'x' slot (!)
64 :    
65 :     * tests/indexing.Rout.save:
66 :     * tests/indexing.R: additions, mainly for 'lsparse'
67 :    
68 :     * R/diagMatrix.R (Diagonal) & coercion to lgTMatrix: fixes for NA
69 :     case.
70 :    
71 :     * R/Auxiliaries.R (nz.NA): new utility now used in nnzero()
72 :    
73 : maechler 1571 2006-09-16 Martin Maechler <maechler@stat.math.ethz.ch>
74 :    
75 : maechler 1572 * R/sparseMatrix.R (prSpMatrix): print logical NAs "visibly"
76 :     as 'N' (1-letter - Ok?)
77 :    
78 : maechler 1571 * tests/group-methods.R: add test for logical + NAs
79 :    
80 :     * R/dMatrix.R ("Compare"): fix to work with NA's
81 :    
82 :     * R/AllClass.R: "Cholesky" etc now inherit from MatrixFactorization.
83 :    
84 :     * src/lgCMatrix.c (ncsc_to_matrix): renamed from lcsc_to_matrix()
85 :     which is implemented.
86 :    
87 : maechler 1565 2006-09-15 Martin Maechler <maechler@stat.math.ethz.ch>
88 :    
89 : maechler 1571 * src/chm_common.c: coerce logical <-> double instead of
90 :     typecasting; needed for "l" matrix handling in cholmod.
91 : maechler 1565
92 : maechler 1571 * tests/other-pkgs.R (graph): small extension in "graph" checks.
93 :    
94 : maechler 1565 * R/sparseMatrix.R (graphNEL -> Tsparse): method for weight case.
95 :     (Tsp2grNEL): other fixes needed
96 :    
97 : maechler 1548 2006-09-11 Martin Maechler <maechler@stat.math.ethz.ch>
98 :    
99 :     * R/AllClass.R ("nMatrix"): and subclasses for "nonzero pattern"
100 :     Matrices, since "lMatrix", also "lsparseM" can have NA
101 :     * R/ndenseMatrix.R, etc: new source files
102 :     * man/nsparseMatrix-classes.Rd, etc: new help files
103 :     * tests/: adaptions
104 :     * src/chm_common.c (chm_dense_to_SEXP): and others:
105 :     new 'Rkind' argument: "l*" and "d*" both use CHOLMOD_REAL
106 : maechler 1582 * src/Csparse.c, etc: ditto
107 : maechler 1548
108 : bates 1546 2006-09-11 Douglas Bates <bates@R-project.org>
109 :    
110 :     * src/Mutils.[ch],init.c inst/include/*.h: Move the
111 :     alloc_d**Matrix functions to the lme4 package.
112 :    
113 : bates 1543 2006-09-09 Douglas Bates <bates@R-project.org>
114 :    
115 :     * src/dsCMatrix.c (dsCMatrix_Cholesky): igoring LDL = FALSE now
116 : maechler 1544 fixed
117 : bates 1543
118 : maechler 1544 2006-09-09 Martin Maechler <maechler@stat.math.ethz.ch>
119 :    
120 : maechler 1548 * R/lMatrix.R: new
121 :    
122 : maechler 1544 * R/sparseMatrix.R (Tsp2grNEL): do not yet use graph::foo()
123 :    
124 :     * R/dgeMatrix.R: do not define tcrossprod() methods for "matrix"
125 : maechler 1582 * man/tcrossprod.Rd: ditto
126 : maechler 1544
127 : bates 1538 2006-09-08 Douglas Bates <bates@stat.wisc.edu>
128 :    
129 :     * inst/include/Matrix_stubs.c,Matrix.h: Add declarations and stubs
130 :     for exported functions
131 :     * src/Makefile, src/CHOLMOD/Lib/Makefile, src/Metis,CAMD,CCOLAMD:
132 :     Remove partitioning algorithms for sparse matrix reordering. The
133 :     copyright on the Metis code was problematic and the methods were
134 :     rarely used.
135 :     * src/triplet_to_col.[ch],MMHB.[ch]: Remove triplet_to_col. Such
136 :     operations are now done entirely in CHOLMOD code.
137 :    
138 : bates 1517 2006-09-06 Douglas Bates <bates@R-project.org>
139 :    
140 :     * src/Mutils.h: Remove functions that are no longer used.
141 :    
142 : bates 1507 2006-09-04 Douglas Bates <bates@R-project.org>
143 :    
144 :     * src/dtCMatrix.c (dtCMatrix_validate): rename functions.
145 :     * src/DEPS.mkf: update
146 :    
147 : maechler 1481 2006-09-02 Martin Maechler <maechler@stat.math.ethz.ch>
148 :    
149 :     * created branches/Matrix-for-R-2.3.x; on trunk: do
150 :     * DESCRIPTION (Version): 0.9975-0
151 :     (Depends): R (>= 2.4.0)
152 :    
153 : bates 1475 2006-09-01 Douglas Bates <bates@R-project.org>
154 :    
155 :     * R/sparseMatrix.R: Added direct method to CsparseMatrix from graphNEL
156 :    
157 : maechler 1472 2006-09-01 Martin Maechler <maechler@stat.math.ethz.ch>
158 :    
159 :     * R/sparseMatrix.R: add coercion from "ANY" to "sparseMatrix"
160 :     * R/denseMatrix.R: add coercion from "ANY" to "denseMatrix"
161 :    
162 :     * R/Matrix.R ([): use nargs() to disambiguate M[i] and M[i,]
163 :    
164 :     2006-08-31 Martin Maechler <maechler@stat.math.ethz.ch>
165 :    
166 :     * R/sparseMatrix.R (Arith): moved Arith group method one-level up
167 :     from "dsparse" to "sparse" and now go via "Csparse" instead of "dgC"
168 : maechler 1582 * R/dsparseMatrix.R: ditto
169 :     * R/Csparse.R: ditto
170 : maechler 1472
171 :     2006-08-31 Martin Maechler <maechler@stat.math.ethz.ch>
172 :    
173 :     * R/dMatrix.R (Compare): improve availability of "<", etc
174 :     * R/Auxiliaries.R (asTuniq): new; also make use of R 2.4.x print(*,max)
175 :    
176 : maechler 1467 2006-08-30 Martin Maechler <maechler@stat.math.ethz.ch>
177 :    
178 :     * R/dgCMatrix.R: aargh: "Arith(<dgC>, numeric)" was wrong because
179 :     of a 0-index which was used as 1-index (..hmm)
180 :    
181 :     * R/sparseMatrix.R (prSpMatrix): fix printing an all-0 sparse Matrix
182 :    
183 :     * R/Auxiliaries.R (all0, is0): for 0-testing in presence of NA's
184 :     * R/Auxiliaries.R (isTriMat): use all0() for 0-testing.
185 : maechler 1582 (.is.diagonal): ditto
186 : maechler 1467
187 :     * R/lgTMatrix.R: as("matrix", "lgTMatrix"): warn about NA's
188 :    
189 :     * R/Matrix.R (Matrix): also work for NA data
190 :    
191 : maechler 1455 2006-08-28 Martin Maechler <maechler@stat.math.ethz.ch>
192 :    
193 :     * R/Matrix.R (Matrix): + 'forceCheck' argument; dimnames setting
194 :     in all cases.
195 :    
196 : bates 1453 2006-08-27 Douglas Bates <bates@R-project.org>
197 :    
198 :     * src/dense.[ch],init.c, R/ddenseMatrix.R, man/band.Rd
199 :     (ddense_band): Added triu, tril and band for ddenseMatrix objects.
200 :    
201 : maechler 1447 2006-08-25 Martin Maechler <maechler@stat.math.ethz.ch>
202 :    
203 :     * src/Mutils.c (dup_mMatrix_as_dgeMatrix): added all subclasses of
204 :     subclasses of "ddenseMatrix"
205 :     * src/init.c et al: outcomment dtrM*_as_dge* and dsyM*_as_dge*_
206 :     * R/ddenseMatrix.R et al: setAs("ddenseMatrix", "dgeMatrix", ..)
207 :     instead of half dozen specialized ones.
208 :    
209 : bates 1445 2006-08-25 Douglas Bates <bates@R-project.org>
210 :    
211 :     * R/lmer.R (qqmath method): Bug fix provided by Emmanuel Tillard
212 :     <tillard@cirad.fr> - ordering standard errors to match effects.
213 :    
214 : bates 1439 2006-08-24 Douglas Bates <bates@R-project.org>
215 : bates 1431
216 : bates 1439 * src/lsCMatrix.c (lsCMatrix_trans): Remove lsCMatrix_chol based
217 :     on R_ldl.
218 :     * R/lCholCMatrix.R,
219 :     src/[dl]CholCMatrix.[ch],R_ldl.[ch],Metis_utils.[ch]: removed
220 :     * src/dsCMatrix.c (dsCMatrix_to_dgTMatrix): use CHOLMOD
221 :     * many files in ./R and ./src: Use more general version of
222 :     dup_mMatrix_as_dgeMatrix to simplify method definitions.
223 : bates 1442 * src/Mutils.c (dup_mMatrix_as_dgeMatrix): Add ddiMatrix,
224 :     dtpMatrix, dspMatrix and dppMatrix conversions.
225 :    
226 : maechler 1447
227 : bates 1439 2006-08-23 Douglas Bates <bates@R-project.org>
228 :    
229 :     * R/AllClass.R,lCholCMatrix.R,src/SOURCES_C.mkf,init.c,NAMESPACE:
230 :     Remove classes lCholCMatrix and dCholCMatrix based on R_ldl code.
231 : bates 1431 * src/dgeMatrix.c: Ensure 'factors' slot exists in result of
232 :     dgeMatrix_crossprod (may need to do this in other places).
233 :     * R/AllGeneric.R,dsCMatrix.R, src/dscMatrix.[ch]: Add Cholesky
234 :     generic and method for dsCMatrix. Use CHOLMOD for chol().
235 :    
236 : bates 1414 2006-08-22 Douglas Bates <bates@R-project.org>
237 :    
238 :     * src/Mutils.c (dup_mMatrix_as_dgeMatrix): updated for general
239 :     types of classed Matrices, matrices or numeric or logical vectors.
240 : bates 1423 * src/init.c: register dup_mMatrix_as_dgeMatrix for coercions.
241 :     * src/chm_common.c,Mutils.h (as_cholmod_factor): Move check_class
242 :     to Mutils.h (as an inline) and change name to Matrix_check_class;
243 :     fixes in as_cholmod_factor and chm_factor_to_SEXP.
244 :     * src/dsCMatrix.[ch]: Use CHOLMOD for dsCMatrix_chol and
245 :     dsCMatrix_matrix_solve. Comment out vestigial functions.
246 :     * src/Csparse.c: use diag_P and uplo_P macros.
247 : maechler 1447
248 : bates 1405 2006-08-21 Douglas Bates <bates@R-project.org>
249 :    
250 :     * src/lmer.c (internal_mer_RZXinv): Fix memory leak caught by
251 : maechler 1447 valgrind.
252 : bates 1411 * tests/matprod.R: Add tests to verify that 'solve' and '%*%' are
253 :     inverses.
254 :     * src/sparseQR.c (sparseQR_validate): add new validation test, fix
255 :     -Wall warnings.
256 :     * src/dppMatrix.c,dtrMatrix.c,dgCMatrix.c,dgeMatrix.c,dspMatrix.c:
257 :     Use dup_mMatrix_as_dgeMatrix.
258 : maechler 1447
259 : bates 1403 2006-08-20 Douglas Bates <bates@R-project.org>
260 :    
261 :     * src/sparseQR.c: Fix thinko in sparseQR_resid_fitted.
262 :     * tests/sparseQR.R: Added
263 :     * man/sparseQR-class.Rd: Document methods for qr.* generics
264 :     * R/sparseQR.R: Return correct # of coefs; fix cut-and-paste errors
265 :    
266 : bates 1398 2006-08-19 Douglas Bates <bates@R-project.org>
267 :    
268 :     * NAMESPACE, R/sparseQR.R, src/init.c,sparseQR.[ch],SOURCES_C.mkf:
269 :     Added methods for sparseQR for qr.qy, qr.qty, qr.coef, qr.resid
270 :     and qr.fitted.
271 :     * src/Mutils.[ch]: Added dup_mMatrix_as_dgeMatrix utility
272 :     * src/dgCMatrix.c: Check for ordering before storing q in dgCMatrix_QR
273 :    
274 : maechler 1389 2006-08-18 Martin Maechler <maechler@stat.math.ethz.ch>
275 :    
276 :     * R/AllGeneric.R: add "qr" and "chol" generics; via 'trick' since
277 :     the base version has no "..." argument.
278 :    
279 :     * R/sparseMatrix.R (prSpMatrix): fix the triangular unit diagonal case.
280 :    
281 :     * R/Matrix.R: define and
282 :     * NAMESPACE: export as.numeric() and as.logical() methods.
283 :     Let's hope these do not badly slow down something...
284 :     Finally export the zapsmall() method.
285 :    
286 : bates 1388 2006-08-17 Douglas Bates <bates@R-project.org>
287 :    
288 :     * src/dgCMatrix.[ch] (dgCMatrix_matrix_solve), src/init.c,
289 :     R/dgCMatrix.R: solve methods for dgCMatrix and dense RHS.
290 :     * src/dtCMatrix.c :Remove code that is no longer used
291 :     * R/dtCMatrix.R: Use C code for diagU2N in CsparseMatrix classes
292 :    
293 : bates 1370 2006-08-14 Douglas Bates <bates@R-project.org>
294 :    
295 : bates 1373 * src/Csparse.[ch],init.c (Csparse_to_logical): Added utilities
296 :     Csparse_to_logical and Csparse_symmetric_to_general.
297 :     * R/dgCMatrix.R,dsCMatrix.R,Csparse.R : Consolidate general
298 : maechler 1389 coercion methods between CsparseMatrix and TsparseMatrix.
299 : bates 1373
300 :     2006-08-14 Douglas Bates <bates@R-project.org>
301 :    
302 : bates 1370 * R/dtCMatrix.R,dgCMatrix.R,Csparse.R src/init.c,dgCMatrix.[ch],
303 :     Csparse.[ch],chm_common.c,dense.c : Use CHOLMOD code and methods
304 :     for CsparseMatrix, TsparseMatrix, denseMatrix or matrix when
305 :     possible.
306 :    
307 : bates 1368 2006-08-12 Douglas Bates <bates@R-project.org>
308 :    
309 :     * src/chm_common.[ch],Csparse.[ch],Tsparse.[ch],CHMfactor.c,dtTMatrix.c,
310 :     dgTMatrix.c,dgCMatrix.c,dsCMatrix.c,dtTMatrix.c, R/dsTMatrix.R,
311 :     Tsparse.R,Csparse.R,dgTMatrix.R,dsCMatrix.R,lsCMatrix.R:
312 :     generalize conversions between TsparseMatrix, CsparseMatrix,
313 :     denseMatrix and matrix. Preserve triangularity property and
314 :     propagate Dimnames in the easy cases.
315 :    
316 : bates 1365 2006-08-10 Douglas Bates <bates@R-project.org>
317 :    
318 :     * src/lmer.c: adjust checks in glmer_init for S4SXP
319 :     * tests/validObj.R: check of all(eq) should be all(eq@x) - worked
320 :     before S4SXP but for the wrong reasons.
321 :    
322 : bates 1354 2006-08-08 Douglas Bates <bates@R-project.org>
323 :    
324 : bates 1360 * src/Csparse.c (Csparse_crossprod): tcrossprod result has stype = -1.
325 :     Later modified to return the upper triangle only.
326 :     * R/dgTMatrix.R: Remove vestigial crossprod and tcrossprod methods.
327 : maechler 1389
328 : bates 1352 2006-08-07 Douglas Bates <bates@R-project.org>
329 :    
330 :     * src/Csparse.c (Csparse_crossprod): Set stype on result to avoid
331 :     R-level conversion to a sparse symmetric class.
332 :     * R/Tsparse.R,R/Csparse.R (crossprod and tcrossprod methods):
333 :     Remove conversion to sparse symmetric classes (now done in C code).
334 :    
335 : maechler 1349 2006-08-07 Martin Maechler <maechler@stat.math.ethz.ch>
336 :    
337 : maechler 1351 * R/dgCMatrix.R: disable old crossprod and tcrossprod methods
338 :     * man/band.Rd: adapt the \dontshow{} unit test.
339 :    
340 :     2006-08-07 Martin Maechler <maechler@stat.math.ethz.ch>
341 :    
342 : maechler 1349 * DESCRIPTION (Version): 0.995-14 for CRAN
343 :    
344 :     * tests/other-pkgs.R: oops: library(Matrix) outside *if* !
345 :    
346 :     * R/sparseMatrix.R (Tsp2grNEL): fixed Tsparse -> graph coercion
347 :     * tests/other-pkgs.R: more checks, sparseMatrix -> graph
348 :    
349 :     * R/Auxiliaries.R (as_Tsparse, as_Rsparse): new
350 :     * R/Tsparse.R (tril, triu, band): methods
351 : bates 1352 * R/dgRMatrix.R (tril, ...): ditto
352 :     * man/band.Rd: ditto
353 : maechler 1349
354 :     2006-08-04 Martin Maechler <maechler@stat.math.ethz.ch>
355 :    
356 :     * R/Matrix.R (head, tail): directly use utils:::head.matrix
357 :     to be up-to-date automatically.
358 :    
359 : maechler 1346 2006-08-03 Martin Maechler <maechler@stat.math.ethz.ch>
360 :    
361 :     * DESCRIPTION (Version): 0.995-13 to be released to CRAN
362 :    
363 :     * DESCRIPTION (Lazydata): no, instead of 'yes' because it fails for:
364 :     * data/CAex.R, inst/external/CAex_slots.rda: replacing data/CAex.rda
365 :     * data/KNex.R, inst/external/KNex_slots.rda: replacing data/KNex.rda
366 :     such that the S4 objects are always created by the current version
367 :     of R and 'Matrix' class definitions.
368 :    
369 : bates 1342 2006-08-01 Douglas Bates <bates@R-project.org>
370 :    
371 :     * R/lmer.R (LMEoptimize method), tests/lmer.R,
372 : maechler 1346 inst/external/test3comp.rda: Added warnings for convergence on
373 : bates 1342 boundary and test cases.
374 :    
375 :     * src/lmer.c (mer_postVar): Modified to return the variances that
376 :     are marginal to the fixed effects, not conditional on them (which
377 :     is what the bVar slot contents represent).
378 :    
379 : bates 1338 2006-07-31 Douglas Bates <bates@R-project.org>
380 :    
381 :     * NAMESPACE, src/lmer.c, R/lmer.R (hatTrace): Add the hatTrace
382 :     function which calls the C function mer_hat_trace2.
383 : maechler 1346
384 : bates 1342 * man/ranef.Rd: Include description of "postVar" argument and
385 :     producing a caterpillar plot.
386 : bates 1338
387 : maechler 1335 2006-07-31 Martin Maechler <maechler@stat.math.ethz.ch>
388 :    
389 :     * NAMESPACE: change "correlation" to "corMatrix"
390 :     * R/AllClass.R: to avoid clash with S3 class in 'nlme'.
391 : bates 1352 * R/dpoMatrix.R: ditto
392 :     * R/lmer.R: ditto
393 : maechler 1335
394 : bates 1338 2006-07-28 Douglas Bates <bates@R-project.org>
395 :    
396 :     * src/lmer.c (internal_mer_RZXinv): Split the calculation of the
397 :     RZXinv slot's contents into a separate internal function that can
398 :     be used in mer_hat_trace.
399 :    
400 : maechler 1331 2006-07-22 Martin Maechler <maechler@stat.math.ethz.ch>
401 :    
402 :     * R/Matrix.R: Coercions "Matrix" -> (sparse|dense)Matrix
403 :     via new smart
404 :     * R/Auxiliaries.R (as_Csparse, as_dense, .M.shapse): new
405 :     utility functions.
406 :    
407 :    
408 : maechler 1330 2006-07-21 Martin Maechler <maechler@stat.math.ethz.ch>
409 :    
410 : maechler 1331 * R/Csparse.R (tril, triu, band): do return *triangular* classed
411 :     matrices when appropriate; band() even symmetric ones.
412 :     (replCmat): extend to potentially all "CsparseMatrix"
413 :     * R/Tsparse.R (replTmat): extend to all "TsparseMatrix"; hence
414 :     allow subassignment for special sparse matrices.
415 :    
416 :     * R/Auxiliaries.R (as_geClass): factor out the .M.kind() functionality
417 :    
418 : maechler 1330 * src/lmer.c (mer_MCMCsamp, glmer_MCMCsamp): new 'verbose'
419 :     argument; in glmer_*(): print only if(verbose).
420 :    
421 :     speed-optimize a few places by moving REAL(.) out of loops.
422 :    
423 :     * src/lmer.h, src/init.h, R/lmer.R: related to above.
424 :    
425 : maechler 1329 2006-07-20 Martin Maechler <maechler@stat.math.ethz.ch>
426 :    
427 :     * R/Matrix.R("["): disable ("Matrix", i = "logical", j = "missing"),
428 :     since that wrongly triggers also for M[ logi , ]
429 :    
430 :     * R/denseMatrix.R: "[" methods now also work e.g. when indexing
431 :     a symmetric matrix that results in a non-symmetric one.
432 :     * R/Auxiliaries.R (as_geClass): new function used in "[" above.
433 :    
434 :     * R/dMatrix.R: make round(M) work as round(M, 0)
435 :    
436 :     * R/dgTMatrix.R (image): coordinate system and axis now use
437 :     1-based indices, not 0-based ones.
438 :    
439 :     * R/Tsparse.R (.ind.prep for "["): get rid of max(<empty>) warning.
440 :     * tests/indexing.R: test it.
441 :    
442 :     * NAMESPACE: export isSymmetric(); has been a generic in "base" for a while;
443 :     * man/isSymmetric-methods.Rd: and document it.
444 :    
445 :     * R/SparseM-conv.R: added coercion methods for some 'SparseM' matrices.
446 :     * man/SparseM-conv.Rd: docu them
447 :    
448 :     * tests/other-pkgs.R: renamed from tests/graph.R and add example
449 :     for 'SparseM' conversions
450 :    
451 :     2006-07-17 Douglas Bates <Douglas.Bates@R-project.org>
452 :    
453 :     * R/Matrix.R (head): added head() and tail() methods.
454 :    
455 :     2006-07-17 Martin Maechler <maechler@stat.math.ethz.ch>
456 :    
457 :     * DESCRIPTION (Version): 0.995-12 released to CRAN
458 :    
459 : maechler 1319 2006-07-15 Martin Maechler <maechler@stat.math.ethz.ch>
460 :    
461 :     * tests/simple.R: add check for correct dsT -> dgT coercion;
462 :     add check for correct printing of symmetric sparse matrices.
463 :    
464 :     * R/Auxiliaries.R (non0ind): return *all* non-0 entry indices also
465 :     for sparse symmetric matrices.
466 :    
467 :     * src/dsTMatrix.c (dsTMatrix_as_dgTMatrix): do not copy the
468 :     diagonal twice.
469 :    
470 : bates 1316 2006-07-11 Douglas Bates <Douglas.Bates@R-project.org>
471 :    
472 :     * src/dsTMatrix.c (dsTMatrix_as_dgTMatrix): Fix a case of INTEGER
473 : maechler 1319 being applied to the x slot (detected by Brian Ripley).
474 : bates 1316
475 : maechler 1315 2006-07-10 Martin Maechler <maechler@stat.math.ethz.ch>
476 :    
477 :     * src/dgCMatrix.c (dgCMatrix_validate): 'p' slot must have correct length.
478 :    
479 :     * R/Auxiliaries.R (isTriC): fix buglet (we were 1-based!)
480 :    
481 :     2006-07-08 Martin Maechler <maechler@stat.math.ethz.ch>
482 :    
483 :     * src/lgCMatrix.c (lgCMatrix_diag): new function
484 :     * R/lgCMatrix.R (diag): for new method
485 :    
486 :     * R/AllClass.R (TsparseMatrix): do use Tsparse_validate
487 :     ==> construction of illegal "*gTMatrix" via new() should
488 :     now be much less easy:
489 :     * tests/Class+Meth.R: assertError() for some illegal "dgT*"
490 :    
491 :     * R/Matrix.R (Matrix): Matrix(0, nrow,ncol) now "goes sparse"
492 :     directly.
493 :     * man/Matrix.Rd: documents it.
494 :    
495 : bates 1311 2006-07-06 Douglas Bates <bates@R-project.org>
496 :    
497 :     * src/pedigree.c (pedigree_inbreeding): Correction in
498 :     initialization. This function is not currently being used and is
499 :     not fully tested.
500 :    
501 : bates 1312 * NAMESPACE, R/{AllClass.R,lmer.R}, src/{init.c,lmer.c}:
502 :     Introduced the glmer class. Added code for mcmcmsamp on glmer
503 :     objects. Modified validity check on pedigree objects to account
504 :     for nonparallel patterns of missingness of parents.
505 : bates 1311
506 : bates 1313 * man/{lmer-class.Rd,mcmcsamp.Rd}: Update documentation for glmer
507 :     class.
508 : maechler 1315
509 :     2006-07-01 Martin Maechler <maechler@stat.math.ethz.ch>
510 :    
511 :     * R/pMatrix.R: coercion pMatrix -> Tsparse
512 :    
513 : bates 1300 2006-06-12 Douglas Bates <bates@R-project.org>
514 :    
515 : maechler 1319 * DESCRIPTION (Version): 0.995-11 released to CRAN
516 :    
517 : bates 1300 * R/lmer.R (mcmcsamp method): Corrected arrangments of names on
518 :     the output from mcmcsamp.
519 :    
520 : bates 1298 2006-06-10 Douglas Bates <bates@R-project.org>
521 :    
522 : bates 1300 * R/lmer.R (simulestimate): added C code for calculating the trace
523 :     of the hat matrix.
524 : bates 1298
525 : maechler 1295 2006-06-09 Martin Maechler <maechler@stat.math.ethz.ch>
526 :    
527 :     * R/diagMatrix.R (setAs): define coercion methods to sparse matrix
528 :     classes.
529 : maechler 1315 * R/sparseMatrix.R etc: multiplication of diagonal and sparse
530 : maechler 1295
531 : maechler 1290 2006-06-08 Martin Maechler <maechler@stat.math.ethz.ch>
532 :    
533 :     * R/dgTMatrix.R (colSums): etc. All four of
534 :     colSums(), rowSums(), colMeans(), rowMeans() now should work for
535 :     all "Matrices".
536 :    
537 : bates 1288 2006-06-01 Douglas Bates <bates@stat.wisc.edu>
538 :    
539 :     * R/lmer.R (panel.ci): Add a reference line at zero and a
540 :     background grid to the qqmath plot of ranef.lmer.
541 :    
542 : bates 1287 2006-05-30 Douglas Bates <bates@stat.wisc.edu>
543 : bates 1284
544 : bates 1287 * R/lmer.R (expandSlash): Functions (non-exported) to allow nested
545 :     grouping factors to be specified in the formula as (1|foo/bar).
546 :    
547 :     2006-05-27 Douglas Bates <bates@stat.wisc.edu>
548 :    
549 : bates 1284 * R/lmer.R (findbars and others): Change check of is.numeric to
550 :     !is.language to resolve the bug reported by Jacob Wegelin.
551 :    
552 :     * src/pedigree.c (pedigree_inbreeding): Initial implementation of
553 :     code to evaluate inbreeding coefficients without calculating T,
554 :     based on code in Sargolzaei and Iwaisaki's paper.
555 :    
556 : bates 1283 2006-05-27 Douglas Bates <bates@stat.wisc.edu>
557 :    
558 :     * R/{lmer.R,AllGeneric.R}, src/{init.c,lmer.[ch]}: Added local
559 :     generic and mer methods for isNested and denomDF. This denomDF was
560 :     an attempt to emulate that in lme but I don't think that makes
561 :     sense. Use the trace of the hat matrix instead.
562 :    
563 : maechler 1271 2006-05-17 Martin Maechler <maechler@stat.math.ethz.ch>
564 :    
565 :     * R/sparseMatrix.R: Matrix <-> graph methods: can no longer use
566 :     the C code depending on a slot structure that's no longer valid.
567 : bates 1352 * src/dgTMatrix.c: ditto (also: src/init.c src/dgTMatrix.h)
568 : maechler 1271
569 :    
570 : bates 1268 2006-05-17 Douglas Bates <bates@stat.wisc.edu>
571 :    
572 :     * R/{AllGeneric.R,Csparse.R},man/band.Rd,NAMESPACE: changed name
573 :     of lowerTriMatrix generic and methods to tril (also upper to triu)
574 :     and added a general band extractor.
575 :    
576 : bates 1267 2006-05-16 Douglas Bates <bates@stat.wisc.edu>
577 :    
578 :     * R/pedigree.R (pedigree): Replace sire and dam values outside the
579 :     allowable range with NAs. Added a corresponding check in the
580 :     validity check for the pedigree class.
581 :    
582 :     * R/[CT]sparse.R ([t]crossprod): The result of single-argument
583 :     crossprod methods now inherits from symmetricMatrix.
584 :    
585 : bates 1265 2006-05-15 Douglas Bates <bates@stat.wisc.edu>
586 :    
587 :     * R/AllGeneric.R (lowerTriMatrix): Added (but did not export)
588 :     generics lowerTriMatrix and upperTriMatrix along with methods for
589 :     the Csparse virtual class. Also added a C function Csparse_band
590 :     that implements these methods by calling cholmod_band.
591 :    
592 : maechler 1264 2006-05-15 Martin Maechler <maechler@stat.math.ethz.ch>
593 :    
594 :     * R/Tsparse.R ("["): column or row subsetting; @Dimnames[k] got
595 :     erased when it was NULL. This led to invalid subselections!
596 :    
597 : bates 1259 2006-04-25 Douglas Bates <bates@stat.wisc.edu>
598 :    
599 :     * R/dtCMatrix.R: avoid coercion of dtCMatrix object to dgCMatrix
600 :     in method for "t" so as not to lose the unit diagonal property.
601 :    
602 : bates 1257 2006-04-19 Douglas Bates <bates@stat.wisc.edu>
603 :    
604 :     * R/lmer.R, R/AllGeneric.R, NAMESPACE: Remove the postVar generic
605 :     and methods. This is now an option to the ranef method for the
606 :     mer class.
607 :    
608 :     * src/cs_utils.c: Ensure that the nz component is -1 for a
609 :     compressed column-oriented matrix. Minor formatting cleanup.
610 :    
611 :     * man/lmer-class.Rd: Document the qqmath method for ranef.lmer
612 :     objects.
613 :    
614 : maechler 1253 2006-04-19 Martin Maechler <maechler@stat.math.ethz.ch>
615 :    
616 :     * R/Auxiliaries.R (diagU2N): new for the solve() methods in
617 :     * R/dtCMatrix.R: where dgC -> dgT coercion now preserves diag = "U".
618 :    
619 : bates 1251 2006-04-15 Douglas Bates <bates@stat.wisc.edu>
620 :    
621 :     * src/cs.[ch],src/cs_utils.[ch] : Added Tim Davis' CSparse library
622 :     in cs.[ch] and utilities to interface to that code in cs_utils.[ch].
623 :    
624 :     * R/dtCMatrix.R, src/dtCMatrix.[ch] : CSparse-based solve methods
625 :     for the dtCMatrix class.
626 : maechler 1253
627 : bates 1247 2006-04-12 Douglas Bates <bates@stat.wisc.edu>
628 :    
629 :     * R/pedigree.R, R/AllClass.R, NAMESPACE: added a pedigree class
630 :     and methods for it.
631 :    
632 : maechler 1245 2006-04-12 Martin Maechler <maechler@stat.math.ethz.ch>
633 :    
634 :     * R/dgCMatrix.R: add storage.mode(.) <- "double" for "matrix"
635 :     arguments, such that M %*% 1:6 now works
636 :     * Tests/matprod.R: test the above
637 :    
638 : bates 1244 2006-04-03 Douglas Bates <bates@stat.wisc.edu>
639 : bates 1243
640 :     * R/lmer.R (qqmath,ranef.lmer-method): added a qqmath method for
641 :     the ranef.lmer class.
642 :    
643 :     * R/AllClass.R, NAMESPACE, R/lmer.R: Added a postVar generic and
644 :     methods to extract the posterior variances from the bVar slot.
645 :    
646 : maechler 1238 2006-03-30 Martin Maechler <maechler@stat.math.ethz.ch>
647 :    
648 :     * R/dtCMatrix.R: allow coercion from dgC* to triangular (dtC*)
649 :     * R/dsCMatrix.R: and symmetric (dsC*) 'Csparse' matrices.
650 :    
651 :     * R/Tsparse.R: Tsparse* -> Csparse* coercion now works and is tested in
652 :     * tests/simple: (extended)
653 :    
654 :     * R/sparseMatrix.R (isTriangular): now using much improved
655 :     * R/Auxiliaries.R (isTriC): new triangularity check for *CMatrix
656 :    
657 : bates 1236 2006-03-23 Douglas Bates <bates@stat.wisc.edu>
658 :    
659 :     * src/dsyMatrix.c (dsyMatrix_as_dspMatrix): Propagate DimNames
660 :     (problem report from Franklin Parlamis). This should be done
661 : maechler 1238 generally.
662 : bates 1236
663 : bates 1234 2006-03-21 Douglas Bates <bates@stat.wisc.edu>
664 :    
665 :     * R/AllClass.R,lmer.R: Change the name of the lmer.ranef class to
666 :     ranef.lmer (like summary.lmer). Add the coef.lmer class and
667 :     update the plot methods.
668 :    
669 : bates 1232 2006-03-20 Douglas Bates <bates@stat.wisc.edu>
670 :    
671 :     * R/lmer.R (resid and ranef methods): Added methods for the
672 :     "residuals" and "resid" generic but only for linear mixed model
673 :     fits. Changed the ranef method to return a list of data frames so
674 :     that the plot methods now work.
675 :    
676 : bates 1230 2006-03-16 Douglas Bates <bates@bates2>
677 :    
678 :     * src/dpoMatrix.c (dpoMatrix_chol): Require n > 0 in call to
679 :     dpotrf - otherwise the BLAS on Mac OS X complains and quits.
680 :    
681 :     * DESCRIPTION (Date): New release
682 :    
683 : maechler 1228 2006-03-15 Martin Maechler <maechler@stat.math.ethz.ch>
684 :    
685 :     * DESCRIPTION (Version): 0.995-6 -- to be released to CRAN
686 :    
687 :     * data/KNex.rda: replacing 'mm' and 'y' by KNex <- list(mm=mm, y=y)
688 :     * man/KNex.Rd: and other help files
689 :     * tests/*.R: several ones needed adaption
690 : bates 1352 * inst/doc/Comparisons.Rnw: ditto
691 : maechler 1228
692 : maechler 1226 2006-03-11 Martin Maechler <maechler@stat.math.ethz.ch>
693 :    
694 :     * R/dgCMatrix.R (replCmat): "[<-" methods for dgCMatrix
695 :    
696 :     * tests/indexing.R: tests for new [<- methods for sparse matrices.
697 :    
698 :     2006-03-10 Martin Maechler <maechler@stat.math.ethz.ch>
699 :    
700 :     * R/dgTMatrix.R (replTmat): "[<-" methods for dgTMatrix
701 :    
702 :     * R/Tsparse.R (.ind.prep): fix out-of-range indexing
703 :    
704 :     2006-03-08 Martin Maechler <maechler@stat.math.ethz.ch>
705 :    
706 :     * R/dMatrix.R: enable things like M [ M < 10 ]
707 :     * R/dgeMatrix.R: implement it
708 :    
709 : maechler 1222 2006-03-06 Martin Maechler <maechler@stat.math.ethz.ch>
710 :    
711 :     * R/AllClass.R: define "summary.mer" and "*.lmer"
712 :     * R/lmer.R (summary): summary(<mer>) computes & returns the above;
713 :     * R/lmer.R (show): now works with summary()
714 :    
715 :     2006-03-04 Martin Maechler <maechler@stat.math.ethz.ch>
716 :    
717 :     * R/dgCMatrix.R: finally direct "Arith" dgC o dgC
718 :     * R/Auxiliaries.R (WhichintersectInd): and other utilities to
719 :     support the above
720 :    
721 : bates 1213 2006-02-07 Douglas Bates <bates@stat.wisc.edu>
722 :    
723 :     * R/lmer.R (lmer): fix initial values of offset and weights for glm.fit.
724 :     Use glmFit$prior.weights for weights in a glmm.
725 :     Allow an option usePQL = FALSE to skip the PQL steps for the
726 :     Laplace method (and, in time, the AGQ method).
727 :    
728 :     * src/lmer.c (mer_factor): Move downdating and factoring of XtX
729 :     into a separate function internal_mer_Xfactor to be able to call
730 :     it from internal_bhat.
731 :    
732 : maechler 1200 2006-01-23 Martin Maechler <maechler@stat.math.ethz.ch>
733 :    
734 :     * tests/Class+Meth.R (tstMatrixClass): function for much better
735 :     testing; now again of all actual classes.
736 :    
737 :     * src/Mutils.c (MAKE_TRIANGULAR_BODY, MAKE_SYMMETRIC_BODY):
738 :     use macros and define make_d_matrix_* and make_i_matrix_*
739 :     where _i_ is for the ldense routines:
740 :    
741 :     * src/ldense.c (ltrMatrix_as_lgeMatrix): provide functions
742 :     * src/ldense.c (lsyMatrix_as_lgeMatrix):
743 :    
744 :     * R/ldenseMatrix.R: use the above in setAs(*,"lgeMatrix")
745 :    
746 :    
747 : maechler 1174 2006-01-16 Martin Maechler <maechler@stat.math.ethz.ch>
748 :    
749 :     * R/Matrix.R (Matrix): has become much "smarter" now auto-producing
750 :     many different kinds of matrices.
751 :     * R/*.R: quite a few new methods were needed for R CMD check with
752 :     new Matrix(). Very good for users playing around.
753 :    
754 :    
755 : maechler 1165 2006-01-15 Martin Maechler <maechler@stat.math.ethz.ch>
756 :    
757 :     * src/dgeMatrix.c (dMatrix_validate): new
758 :     * src/Mutils.c (dense_nonpacked_validate): new
759 :    
760 :     * src/dtrMatrix.c (dtrMatrix_validate): improved/fixed
761 :    
762 :    
763 :     2006-01-14 Douglas Bates <bates@stat.wisc.edu>
764 :    
765 :     * R/AllClass.R (compMatrix), (generalMatrix): new virtual classes
766 :    
767 : bates 1123 2006-01-07 Douglas Bates <bates@stat.wisc.edu>
768 : bates 1119
769 : maechler 1127 * DESCRIPTION (Version): 0.99-6 released to CRAN
770 :    
771 : bates 1119 * src/dgBCMatrix.c (cscb_trcbsm): Fix due to Peter Dalgaard for
772 :     segfault in cases with multiple non-nested grouping factors.
773 :    
774 : maechler 1109 2006-01-03 Martin Maechler <maechler@stat.math.ethz.ch>
775 :    
776 :     * DESCRIPTION (Version): 0.99-4 to be released to CRAN
777 :     (Depends): also on 'utils'
778 :    
779 :     * R/AllClass.R (diagonalMatrix): new class with "ddi*" and "ldi*"
780 :     * R/diagMatrix.R (Diagonal): constructor and methods for
781 :     diagonal matrices
782 :    
783 :     * R/ltTMatrix.R: new "minimal methods"
784 :    
785 : maechler 1091 2005-12-12 Martin Maechler <maechler@stat.math.ethz.ch>
786 :    
787 :     * R/AllGeneric.R (tcrossprod): 2-argument version; here, and for
788 :     all methods (and help files).
789 :    
790 : maechler 1084 2005-12-09 Martin Maechler <maechler@stat.math.ethz.ch>
791 :    
792 :     * R/Auxiliaries.R (dimNamesCheck): fixed thinko -> bug
793 :     for case (dimn. op no_dimn.)
794 :    
795 :     2005-11-14 Douglas Bates <bates@stat.wisc.edu>
796 :    
797 : maechler 1174 * DESCRIPTION (Version): 0.99-2 released to CRAN
798 : maechler 1084
799 : bates 988 2005-10-21 Douglas Bates <bates@stat.wisc.edu>
800 :    
801 :     * R/lmer.R (simulate method): Fixed a drop=FALSE problem reported
802 :     by Julian Faraway.
803 :    
804 : maechler 976 2005-10-06 Martin Maechler <maechler@stat.math.ethz.ch>
805 :    
806 :     * R/Auxiliaries.R (try_as): new utility
807 :     * R/sparseMatrix.R: use try_as() in coercion to original class
808 :    
809 : maechler 956 2005-09-30 Martin Maechler <maechler@stat.math.ethz.ch>
810 :    
811 :     * src/dgCMatrix.c (double_to_csc): and dgeMatrix_to_csc()
812 :    
813 :     2005-09-29 Martin Maechler <maechler@stat.math.ethz.ch>
814 :    
815 :     * R/Auxiliaries.R (dimNamesCheck): added
816 :    
817 :     * R/Matrix.R (as.array), (as.vector): new
818 :    
819 : maechler 954 2005-09-28 Martin Maechler <maechler@stat.math.ethz.ch>
820 :    
821 :     * R/Matrix.R (Matrix): get logical argument 'sparse' with a smart
822 : maechler 956 default.
823 :     * R/AllClass.R: move 'factors' slot toplevel "Matrix";
824 :     "pMatrix" now contains "sparseMatrix"
825 : maechler 954
826 : maechler 948 2005-09-26 Martin Maechler <maechler@stat.math.ethz.ch>
827 :    
828 :     * tests/Class+Meth.R: new tests; t(t(m)) == m
829 :    
830 :     * src/dtCMatrix.c (tsc_transpose): add forgotten "diag" slot
831 :    
832 :     * src/dsTMatrix.c (dsTMatrix_as_dsCMatrix): bad typo (segfault!)
833 :     * src/dtTMatrix.c (dtTMatrix_as_dtCMatrix): new
834 :    
835 :     * R/dspMatrix.R: typo in "t" method
836 :    
837 : maechler 925 2005-09-18 Douglas Bates <bates@wisc.edu>
838 :    
839 :     * R/AllClass.R (TsparseMatrix), CsparseM* and RsparseM*
840 :     * R/Tsparse.R: instead of R/gTMatrix.R
841 :     * R/Csparse.R: new
842 :     * src/Tsparse.c (Tsparse_to_Csparse): new; -> cholmod_()
843 :     * src/Tsparse.c: new; many trivial methods calling cholmod_()
844 :     * src/Csparse.c (Csparse_to_Tsparse), transpose, (mat|cross)prod:
845 :     via cholmod
846 :    
847 :     2005-09-16 Martin Maechler <maechler@stat.math.ethz.ch>
848 :    
849 :     * R/Auxiliaries.R (non0ind): new function using new C code
850 :     * src/dgCMatrix.c (compressed_non_0_ij): new utility
851 :    
852 : bates 917 2005-09-15 Douglas Bates <bates@localhost.localdomain>
853 :    
854 :     * src/chm_common.h: header file required by all C sources that
855 : maechler 1174 call CHOLMOD functions. It defines a cholmod_common structure
856 : bates 917 called 'c' whose address is passed as the last argument to
857 :     (virtually) every CHOLMOD function.
858 :    
859 :     * src/Pattern.c: Simple example of the use of CHOLMOD.
860 :    
861 :     * src/init.c: initialize and finalize the cholmod_common structure.
862 :    
863 :     * src/Makefile: Added source packages CHOLMOD UMFPACK AMD COLAMD
864 :     LDL and CCOLAMD from the U. of Florida sparse matrix library.
865 :    
866 : maechler 908 2005-09-08 Martin Maechler <maechler@stat.math.ethz.ch>
867 :    
868 :     * inst/test-tools.R: new file collecting the utility functions used
869 :     in ./tests/*.R
870 :    
871 :     * R/ddenseMatrix.R (cbind2): new methods for "numeric" and "matrix"
872 :     * R/Matrix.R (cbind2): methods for NULL and missing
873 :    
874 : maechler 886 2005-08-31 Martin Maechler <maechler@stat.math.ethz.ch>
875 :    
876 :     * R/AllClass.R: new "index" class for "[" and "[<-":
877 :     First cut at "symmetricMatrix" and "triangularMatrix"
878 :     * R/gTMatrix.R (.ind.prep): new function;
879 : maechler 1174 Logical and character indexing now work too.
880 : maechler 886 * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
881 :     * tests/indexing.R: new, including *.Rout.save
882 :     * tests/dgTMatrix.R: new
883 :    
884 : bates 876 2005-08-29 Douglas Bates <bates@wisc.edu>
885 :    
886 :     * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
887 :     indicator pos not being updated. Also enforced upper triangular
888 :     for symmetric case. Need to coerce edges component of elements of
889 :     edge list - grr! (Why don't they define their classes cleanly?)
890 :    
891 : maechler 871 2005-08-26 Martin Maechler <maechler@stat.math.ethz.ch>
892 :    
893 :     * R/Matrix.R: added first "[<-" methods; not yet functional
894 : bates 1352 * R/denseMatrix.R: ditto
895 : maechler 871 * man/Subassign-methods.Rd: new help file for these
896 :    
897 :     2005-08-25 Martin Maechler <maechler@stat.math.ethz.ch>
898 :    
899 :     * DESCRIPTION (Version): 0.98-6
900 :    
901 :     * R/denseMatrix.R: new file for "[" fallback methods for all dense
902 :     matrices.
903 :    
904 : maechler 868 2005-08-19 Martin Maechler <maechler@stat.math.ethz.ch>
905 :    
906 :     * src/lgCMatrix.c (lcsc_to_matrix): new; need for
907 :     as( <logical>, "matrix")
908 :    
909 :     * R/pMatrix.R: coercion to "lgTMatrix"
910 :    
911 :     * R/gTMatrix.R: new virtual class to define "[" methods for.
912 :     * man/gTMatrix-class.Rd:
913 :     * General slight re-organization of where "[" methods are defined.
914 :     more to come.
915 :    
916 : maechler 871 2005-08-18 Douglas Bates <bates@wisc.edu>
917 : maechler 868
918 : maechler 1174 * DESCRIPTION (Version): 0.98-5 released to CRAN
919 : maechler 871
920 :     * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
921 :     * .....
922 :    
923 : bates 863 2005-08-18 Douglas Bates <bates@localhost.localdomain>
924 :    
925 :     * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
926 :     or glmer objects.
927 :    
928 : maechler 860 2005-08-17 Martin Maechler <maechler@stat.math.ethz.ch>
929 :    
930 :     * DESCRIPTION (Version): 0.98-4 : upload to CRAN
931 :    
932 :     2005-08-16 Douglas Bates <bates@localhost.localdomain>
933 :    
934 :     * R/HBMM.R: finish re-writing R-only code.
935 :    
936 : bates 854 2005-08-15 Douglas Bates <bates@localhost.localdomain>
937 :    
938 :     * man/externalFormats.Rd: move documentation for writeHB and
939 :     writeMM here.
940 :    
941 :     * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
942 :     (suggested by Paul Roecker).
943 :    
944 :     * tests/validObj.R (assertError): Comment out test that is failing
945 :     after recent changes in r-devel.
946 :    
947 : maechler 860
948 : maechler 848 2005-08-11 Martin Maechler <maechler@stat.math.ethz.ch>
949 :    
950 :     * R/AllClass.R: intermediate virtual class "denseMatrix"
951 :     * man/denseMatrix-class.Rd
952 :     * NAMESPACE: export it, and also export
953 :     * man/unused-classes.Rd: "iMatrix", "zMatrix" and "ldenseMatrix"
954 :    
955 : bates 846 2005-08-10 Douglas Bates <bates@wisc.edu>
956 :    
957 : maechler 848 * DESCRIPTION (Version): 0.98-3 to CRAN
958 :    
959 : bates 846 * src/dtrMatrix.c (dtrMatrix_validate): fixed up validation and
960 :     matrix_solve code (which was really, really wrong).
961 :    
962 : bates 835 2005-08-07 Douglas Bates <bates@wisc.edu>
963 : maechler 834
964 :     * DESCRIPTION (Version): 0.98-2
965 :    
966 :     * R/HBMM.R (readHB), (readMM): read Matrix Market formats
967 :    
968 :     * R/lmer.R (abbrvNms): new
969 :     * R/lmer.R (mcmcsamp): allow transformed parameters
970 : bates 835 * src/HBMM.c (Matrix_writeMatrixMarket): Added read/write routines
971 :     for the Harwell-Boeing and the MatrixMarket formats.
972 : maechler 834
973 :     2005-08-04 Martin Maechler <maechler@stat.math.ethz.ch>
974 :    
975 :     * man/dtrMatrix-class.Rd: add examples
976 : bates 835 * man/dtpMatrix-class.Rd: ditto; plus note about PROBLEM
977 : maechler 834
978 :     * TODO: note the dtpMatrix (docu) bug
979 :    
980 :     * R/zzz.R (.onLoad): assignInNamespace("as.matrix", *, "base")
981 :     in order to ensure that new as.matrix() is used by old functions,
982 :     e.g., svd(), qr(), eigen(), dist(),..;
983 :     apply(), also matplot() or pairs().
984 :    
985 :    
986 :     2005-08-03 Martin Maechler <maechler@stat.math.ethz.ch>
987 :    
988 :     * R/lmer.R: add 'fixme' comments and move the linear vs glm check;
989 :     add comments about 'control' / lmerControl() arguments
990 :    
991 : bates 835 2005-07-27 Douglas Bates <bates@wisc.edu>
992 : bates 820
993 : bates 835 * man/sleepstudy.Rd: Added the sleep data set.
994 : maechler 1174 * DESCRIPTION (Version): 0.98-1 released to CRAN
995 : bates 820
996 : bates 835 2005-07-12 Douglas Bates <bates@wisc.edu>
997 : maechler 834 * man/sleepstudy.Rd: Added the sleep data set.
998 :    
999 : bates 809 * R/lmer.R (glmmMCMC): Added PACKAGE = "Matrix" in a couple of
1000 :     .Call calls that were producing spurious output.
1001 :    
1002 : bates 835 2005-07-05 Douglas Bates <bates@wisc.edu>
1003 : bates 801
1004 :     * R/lmer.R (lmer): stored updated variance component estimates in
1005 :     mer object for the generalized model. (Bug reported by Renaud
1006 :     Lancelot).
1007 :    
1008 : bates 835 2005-07-03 Douglas Bates <bates@wisc.edu>
1009 : bates 794
1010 :     * src/lmer.c (glmer_devAGQ): Added AGQ for single grouping factor,
1011 :     unidimensional case.
1012 :    
1013 : bates 835 2005-06-08 Douglas Bates <bates@wisc.edu>
1014 : maechler 791
1015 :     * DESCRIPTION (Version): 0.96-1
1016 :    
1017 : maechler 1174 * moved lmer-class' R and C code moved from lme4 to here
1018 : maechler 791
1019 : bates 835 2005-06-04 Douglas Bates <bates@wisc.edu>
1020 : bates 763
1021 :     * R/dgCMatrix.R: Call to csc_matrix_mm used undefined arguments
1022 :     (reported by Guissepe Ragusa <gragusa@ucsd.edu>)
1023 :    
1024 : bates 835 2005-06-02 Douglas Bates <bates@wisc.edu>
1025 : bates 763
1026 :     * src/Makefile.win: Forgot to update this when Makefile changed.
1027 :    
1028 : bates 835 2005-05-11 Douglas Bates <bates@wisc.edu>
1029 : bates 726
1030 :     * src/dgCMatrix.c (csc_transpose): Simplified function fixing a
1031 :     bug reported by Kurt Hornik and Michael Hahsler.
1032 :    
1033 : bates 835 2005-05-10 Douglas Bates <bates@wisc.edu>
1034 : bates 725
1035 :     * src/lgCMatrix.c (Matrix_lgClgCmm): Implementation of methods for
1036 :     logical sparse matrices. These will also be used in the symbolic
1037 :     analysis for lmer objects.
1038 :    
1039 :     * src/dsCMatrix.c (dsCMatrix_matrix_solve): Copied the dimensions
1040 :     of b to the result. Fixes bug reported by Jean.Coursol@math.u-psud.fr
1041 : maechler 791
1042 : bates 835 2005-05-06 Douglas Bates <bates@wisc.edu>
1043 : bates 714
1044 :     * src/dgeMatrix.c (dgeMatrix_colsums): Added an implementation of
1045 :     colMeans, colSums, rowMeans and rowSums.
1046 :    
1047 : bates 835 2005-04-18 Douglas Bates <bates@wisc.edu>
1048 : bates 692
1049 :     * src/lgCMatrix.[ch]: code for _validate method and stub for
1050 :     multiplication operation.
1051 :    
1052 :     * src/dgeMatrix.c (dgeMatrix_matrix_solve): Passing wrong argument
1053 :     to dgetrs.
1054 :    
1055 :     * src/init.c: Fix cut-and-paste error in definition of
1056 :     dgeMatrix_matrix_solve
1057 :    
1058 :     * src/{many files}: Tighten code by using ALLOC_SLOT.
1059 :    
1060 : bates 835 2005-04-15 Douglas Bates <bates@wisc.edu>
1061 : bates 692
1062 :     * R/AllClass.R: Add lgTMatrix and lgCMatrix classes
1063 :    
1064 :     * DESCRIPTION: Eliminate import of stats.
1065 :    
1066 : maechler 791
1067 : bates 835 2005-04-06 Douglas Bates <bates@wisc.edu>
1068 : bates 692
1069 :     * R/AllClass.R : add logical sparse matrix classes
1070 :    
1071 : maechler 687 2005-04-01 Martin Maechler <maechler@stat.math.ethz.ch>
1072 :    
1073 :     * R/dgTMatrix.R: add "[" method for triplet matrices
1074 :     * R/sparseMatrix.R: and other sparse ones; --> add show() for sparse
1075 :    
1076 : bates 835 2005-03-31 Douglas Bates <bates@wisc.edu>
1077 : maechler 687
1078 :     * DESCRIPTION (Version): release 0.95-5 to CRAN
1079 :    
1080 :     * R/dMatrix.R: add %*%, crossprod and solve "fallback" methods
1081 :     * R/sparseMatrix.R: %*%, crossprod()
1082 :     * R/dgeMatrix.R: more "fallback" methods for numeric/dense matrices
1083 :     * man/*.Rd: move method definitions to 'Matrix' and 'dMatrix'
1084 :     * src/lmer.c (lmer_fitted): fix thinko
1085 :    
1086 : maechler 676 2005-03-26 Martin Maechler <maechler@stat.math.ethz.ch>
1087 :    
1088 :     * R/AllClass.R: add two virtual sparse classes ``on top''
1089 :    
1090 :     2005-03-24 Martin Maechler <maechler@stat.math.ethz.ch>
1091 :    
1092 :     * R/AllClass.R (setClass): use "VIRTUAL" for the virtual classes;
1093 :     correspondingly fix examples and tests/ since new()
1094 :     doesn't work for virtual classes.
1095 :    
1096 : maechler 658 2005-03-17 Martin Maechler <maechler@stat.math.ethz.ch>
1097 :    
1098 :     * R/Matrix.R (as.matrix): method and one for unname()
1099 :     * tests/dpoMatrix.R: tests should now be less platform dependent;
1100 :     also run for R 2.1.0; using as.matrix()
1101 :    
1102 : bates 835 2005-03-15 Douglas Bates <bates@wisc.edu>
1103 : maechler 658
1104 :     * R/pMatrix.R: "pMatrix" class added
1105 :     * ....
1106 :    
1107 : bates 835 2005-03-14 Douglas Bates <bates@wisc.edu>
1108 : bates 645
1109 :     * R/dtpMatrix.R: Add unpack method and an example.
1110 :    
1111 :     * src/dsyMatrix.c (dsyMatrix_trf): Add BunchKaufman factorization
1112 :     of general symmetric matrices and associated S4 methods.
1113 :    
1114 : maechler 658 2005-03-10 Martin Maechler <maechler@stat.math.ethz.ch>
1115 :     +
1116 :     2005-03-05 Martin Maechler <maechler@stat.math.ethz.ch>
1117 :    
1118 :     * R/dgeMatrix.R (setAs): and many other files: more coercion,
1119 :     crossprod() and "%*%" methods added; tests, too.
1120 :     * tests/matprod.R: new, for testing these
1121 :    
1122 : bates 835 2005-03-03 Douglas Bates <bates@wisc.edu>
1123 : bates 599
1124 :     * src/lmer.c (lmer_fitted): Added.
1125 :    
1126 : bates 835 2005-03-02 Douglas Bates <bates@wisc.edu>
1127 : bates 596
1128 :     * R/dsTMatrix.R: Conversion from dsTMatrix to dsCMatrix
1129 :    
1130 : bates 835 2005-02-28 Douglas Bates <bates@wisc.edu>
1131 : bates 582
1132 :     * src/*.c,po/,inst/po: Internationalization and localization of
1133 :     the package.
1134 :    
1135 :     * src/ldl.[ch]: Removed these as their contents are referenced in the
1136 :     R_ldl.c file.
1137 :    
1138 :     * src/flame.[ch]: Removed these source files.
1139 : maechler 658
1140 : bates 582 * src/dtrMatrix.c (make_array_triangular): Move to Mutils
1141 :    
1142 :     * src/LU.[ch],src/init.c: absorb in factorizations
1143 :    
1144 :     * src/Mutils.h: prepare for internationalization
1145 :    
1146 :     * src/cblas.h: move the enum definitions to Mutils.h and remove
1147 :     this file
1148 :    
1149 : maechler 578 2005-02-26 Martin Maechler <maechler@stat.math.ethz.ch>
1150 :    
1151 : maechler 579 * R/dgeMatrix.R: provide "dimnames" and "dimnames<-" methods
1152 :    
1153 :     * R/dtrMatrix.R: fix t() method
1154 :    
1155 : maechler 578 * R/dgeMatrix.R: define group methods "Arith", "Math", "Math2"
1156 : maechler 658 * NAMESPACE: export them (and import generics from "methods")
1157 : maechler 578 * tests/group-methods.R : and test them.
1158 :    
1159 :     * src/dtrMatrix.c (dtrMatrix_as_dgeMatrix): prevent seg.fault in
1160 :     border case
1161 :    
1162 :     2005-02-24 Douglas Bates <bates@stat.wisc.edu>
1163 :    
1164 : maechler 658 * DESCRIPTION (Version): 0.95-2 released to CRAN
1165 : maechler 578
1166 :     * src/dgBCMatrix.c:
1167 :     * src/lmer.c: many changes
1168 :     * ...
1169 :    
1170 : maechler 512 2005-02-04 Martin Maechler <maechler@stat.math.ethz.ch>
1171 :    
1172 :     * R/Matrix.R: add more sophisticated show() method.
1173 :    
1174 : maechler 578 2005-02-02 Douglas Bates <bates@stat.wisc.edu>
1175 :    
1176 :     * */* : almost complete reorganization of classes.
1177 :    
1178 : bates 835 2005-01-26 Douglas Bates <bates@wisc.edu>
1179 : bates 460
1180 :     * R/AllGeneric.R: Added matrix exponential generic expm and a method
1181 :     for the geMatrix class.
1182 :    
1183 : bates 835 2005-01-24 Douglas Bates <bates@wisc.edu>
1184 : bates 460
1185 :     * src/Makefile (clean): Remove *.a and *.so
1186 :    
1187 :     * man/cscBlocked-class.Rd: Remove reference to the lmer-class.
1188 :    
1189 : bates 835 2005-01-23 Douglas Bates <bates@wisc.edu>
1190 : bates 460
1191 : maechler 658 * src/lmer.c (Lind): Definition of Lind was backwards. This only
1192 : bates 460 had an effect in cases with more than 2 grouping factors.
1193 :    
1194 : bates 835 2005-01-03 Douglas Bates <bates@wisc.edu>
1195 : bates 415
1196 :     * src/lmeRep.c (lmer_variances): change from lmeRep to lmer
1197 :    
1198 : bates 835 2004-12-23 Douglas Bates <bates@wisc.edu>
1199 : bates 410
1200 :     * src/init.c (R_init_Matrix): Reorder calls to R_registerRoutines
1201 :     and R_useDynamicSymbols (suggested by B.D.Ripley).
1202 :    
1203 : bates 835 2004-12-14 Douglas Bates <bates@wisc.edu>
1204 : bates 392
1205 :     * R/sscMatrix.R: Add determinant methods
1206 :    
1207 :     * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion
1208 :     for tripletMatrix to matrix.
1209 :    
1210 : bates 835 2004-12-13 Douglas Bates <bates@wisc.edu>
1211 : bates 388
1212 : bates 392 * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is
1213 :     no longer used.
1214 :    
1215 : bates 388 * src/R_ldl.c: Created an R-specific version of the ldl.[ch] files
1216 :     with dynamic allocation of scratch arrays.
1217 :    
1218 :     * src/ssclme.c (ssclme_copy_ctab): Fixed bug in creation of ZtZ
1219 :     for multivariate random effects with multiple grouping factors.
1220 :     Fixes part but not all of #15.
1221 :    
1222 : bates 835 2004-12-03 Douglas Bates <bates@wisc.edu>
1223 : bates 375
1224 :     * src/lmeRep.c (lmeRep_factor): order of operations for multiple
1225 :     scalar grouping factors corrected.
1226 :    
1227 : bates 835 2004-11-29 Douglas Bates <bates@wisc.edu>
1228 : bates 375
1229 :     * src/bCrosstab.c: remove diag_update which is no longer used
1230 :    
1231 : bates 835 2004-11-16 Douglas Bates <bates@wisc.edu>
1232 : bates 350
1233 :     * src/Metis_utils.c: Move metis.h include to C sources so that the
1234 :     .h file can be included.
1235 :    
1236 : bates 835 2004-11-12 Douglas Bates <bates@wisc.edu>
1237 : bates 342
1238 : bates 350 * src/LU.c,geMatrix.c,trMatrix.c, etc.:
1239 : bates 342 Complete allocation of slots in NEW_OBJECT.
1240 :    
1241 :     * src/Mutils.h: Moved list of symbols to an include file
1242 :    
1243 : bates 835 2004-11-11 Douglas Bates <bates@wisc.edu>
1244 : bates 342
1245 :     * src/geMutils.c (Matrix_init): remove unused function
1246 :    
1247 : bates 835 2004-11-10 Douglas Bates <bates@wisc.edu>
1248 : bates 342
1249 :     * src/cscMatrix.c (csc_to_imagemat): removed unused function
1250 :    
1251 : bates 835 2004-11-05 Douglas Bates <bates@wisc.edu>
1252 : bates 327
1253 :     * src/Makefile.win (SOURCES_C): Keep consistent with Makefile
1254 :    
1255 : bates 835 2004-10-27 Douglas Bates <bates@wisc.edu>
1256 : bates 303
1257 :     * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls
1258 :    
1259 : bates 835 2004-10-04 Douglas Bates <bates@wisc.edu>
1260 : bates 296
1261 :     * src/init.c: Created R_init_Matrix and added registration of C
1262 :     routines.
1263 :    
1264 : bates 835 2004-10-02 Douglas Bates <bates@wisc.edu>
1265 : bates 283
1266 :     * R/tripletMatrix.R: Force a require(lattice) for the image methods.
1267 :    
1268 : bates 835 2004-06-15 Douglas Bates <bates@wisc.edu>
1269 : bates 229
1270 :     * man/trMatrix-class.Rd: Escape the % chars in .Rd files.
1271 :    
1272 : bates 111 2004-04-20 Douglas Bates <bates@stat.wisc.edu>
1273 :    
1274 :     * src/Makefile.win ($(SHLIB)): Modifications per Uwe Ligges.
1275 :    
1276 : bates 109 2004-04-19 Douglas Bates <bates@stat.wisc.edu>
1277 :    
1278 :     * src/ssclme.c (ssclme_update_mm): fix logic error in
1279 :     ssclme_update_mm
1280 :    
1281 : bates 105 2004-04-18 Douglas Bates <bates@stat.wisc.edu>
1282 :    
1283 :     * src/ssclme.c (ssclme_coef, ssclme_coefGets): Create consistency
1284 :     in the order of unconstrained and constrained parameters.
1285 :     (ssclme_gradient): Added the gradients (not yet correct for
1286 :     multidimensional, unconstrained case).
1287 :    
1288 : bates 78 2004-04-14 Douglas Bates <bates@stat.wisc.edu>
1289 :    
1290 :     * src/ssclme.c (ssclme_EMsteps): Fix logic in REML update
1291 :    
1292 :     * src/Makefile.win: Remove unneeded ranlib call
1293 :    
1294 : bates 71 2004-04-12 Douglas Bates <bates@stat.wisc.edu>
1295 :    
1296 :     * DESCRIPTION (Version): New release
1297 :    
1298 :     * src/Makefile.win: Update Makefile.win to umfpack removal.
1299 :    
1300 : bates 49 2004-04-05 Douglas Bates <bates@bates2_home>
1301 :    
1302 :     * src/triplet_to_col.c: Create triplet_to_col as a native
1303 : maechler 658 function, not the version from umfpack. There were problems with
1304 : bates 49 the configuration of UMFPACK for 64-bit processors and there was
1305 :     only one umfpack routine being used so I moved it here.
1306 :    
1307 : bates 45 2004-04-04 Douglas Bates <bates@bates2_home>
1308 :    
1309 :     * src/ssclme.c (ssclme_variances): New function.
1310 :    
1311 : bates 28 2004-03-28 Douglas Bates <bates@bates2_home>
1312 :    
1313 :     * src/ssclme.c (ssclme_fitted): Added function.
1314 :    
1315 : bates 22 2004-03-27 Douglas Bates <bates@bates2_home>
1316 :    
1317 :     * src/ssclme.c (ssclme_transfer_dimnames): Add new function to
1318 :     store the dimnames in the XtX and bVar slots
1319 :     (ssclme_update_mm): Change the dimensions of the bVar slot
1320 :     components and the returned value from ssclme_ranef.
1321 :    
1322 : bates 10 2004-03-18 Douglas Bates <bates@stat.wisc.edu>
1323 :    
1324 :     * R/{pdMat.R,pdIdent.R,pdLogChol.R,pdMatrixLog.R,pdNatural.R},
1325 :     src/{pdMat.c,pdIdent.c,pdLogChol.c,pdNatural.c},
1326 :     tests/{pdCompSymm.R,pdDiag.R,pdIdent.R,pdLogChol.R,pdNatural.R},
1327 :     man/{pdMat-class.Rd,pdmatrix-class.Rd,corrmatrix-class.Rd,
1328 :     pdDiag-class.Rd,pdIdent-class.Rd,pdNatural-class.Rd,
1329 :     pdLogChol-class.Rd,coefGets.Rd,pdCompSymm-class.Rd,
1330 :     pdfactor-class.Rd,pdFactor.Rd,pdMatrix.Rd,
1331 :     pdBlocked-class.Rd},AllClass.R,AllGeneric.R:
1332 :     Moved the pdMat classes from the lme4 package.
1333 :    
1334 :     2004-03-02 Douglas Bates <bates@stat.wisc.edu>
1335 :    
1336 :     * man/ssclme-class.Rd: Update definition and documentation of the
1337 :     ssclme class to include the DIsqrt slot.
1338 :    
1339 :     * src/ssclme.c (ssclme_deviance): Modify order of computation
1340 :     (much faster using dsyrk, a level 3 BLAS routine).
1341 :    
1342 :     * src/Makefile (SUBLIBS): Change definition (K. Hornik)
1343 :    
1344 :     2004-02-28 Douglas Bates <bates@stat.wisc.edu>
1345 :    
1346 :     * tests/ssclme.R: Modify the test to account for the permutation
1347 :     of the levels of the grouping factors.
1348 :    
1349 :     2004-02-23 Douglas Bates <bates@stat.wisc.edu>
1350 :    
1351 :     * R/ssclme.R,src/ssclme.c (ssclme): Move slots of sscCrosstab slot
1352 :     directly into the ssclme class definition.
1353 :    
1354 :     2004-02-22 Douglas Bates <bates@stat.wisc.edu>
1355 :    
1356 :     * DESCRIPTION (Date): New release
1357 :    
1358 :     * man/ssclme-class.Rd: new file.
1359 :    
1360 :     * src/ssclme.c (ssclme_loglik): major revisions in design. It
1361 :     works and it's fast!
1362 :    
1363 :     2004-02-17 Douglas Bates <bates@stat.wisc.edu>
1364 :    
1365 :     * src/taucs/Makefile.win (lib): Change "ar" to "$(AR)" (B.Ripley)
1366 :    
1367 :     2004-02-16 Douglas Bates <bates@stat.wisc.edu>
1368 :    
1369 :     * DESCRIPTION (Date): New release
1370 :    
1371 :     * NAMESPACE: Don't export ssclme.
1372 :    
1373 :     * data/ScotsSec.rda, man/ScotsSec.Rd: Add Scottish secondary
1374 :     school data.
1375 :    
1376 :     2004-02-11 Douglas Bates <bates@stat.wisc.edu>
1377 :    
1378 :     * src/sscCrosstab.c (sscCrosstab): Added a row to the incidence to
1379 :     keep track of the fixed-effects and the response. Counts also
1380 :     gets an extra element, which is always one.
1381 :    
1382 :     * src/ldl.c: Include these routines from Tim Davis' LDL package.
1383 :    
1384 :     2004-02-10 Douglas Bates <bates@stat.wisc.edu>
1385 :    
1386 :     * src/cscMatrix.c (csc_transpose): new function
1387 :    
1388 :     * src/Mutils.c (csc_sort_columns): perm/iperm confusion corrected
1389 :     (csc_components_transpose): new function
1390 :    
1391 :     2004-02-06 Douglas Bates <bates@stat.wisc.edu>
1392 :    
1393 :     * src/triplet.c (triplet_validate): Fix Dim slot on generated
1394 :     triplets
1395 :    
1396 :     2004-01-30 Douglas Bates <bates@stat.wisc.edu>
1397 :    
1398 :     * R/sscCrosstab.R (sscCrosstab): Added sscCrosstab generator function.
1399 :    
1400 :     * src/LU.h (MATRIX_LU_H): Add #ifndef #define ... #endif to this
1401 :     and all other .h files in src.
1402 :    
1403 :     * src/Makefile.win: This and other Makefile.win files contributed
1404 :     by Brian Ripley.
1405 :    
1406 :     2004-01-27 Douglas Bates <bates@stat.wisc.edu>
1407 :    
1408 :     * R/syMatrix.R: Added methods for "%*%".
1409 :    
1410 :     * R/Hilbert.R (Hilbert): Changed Hilbert function to return a
1411 :     poMatrix object.
1412 :    
1413 :     2004-01-26 Douglas Bates <bates@stat.wisc.edu>
1414 :    
1415 :     * man/sscChol-class.Rd,man/mm.Rd,man/y.Rd: Added man pages.
1416 :    
1417 :     2004-01-25 Douglas Bates <bates@bates2_home>
1418 :    
1419 :     * inst/doc/Introduction.Rnw,Comparisons.Rnw: Added vignettes.
1420 :    
1421 :     * R/csc.R: Convert all cscMatrix classes to use Dim slot instead
1422 :     of nrow.
1423 :    
1424 :     2003-12-31 Douglas Bates <bates@stat.wisc.edu>
1425 :    
1426 :     * src/taucs/taucs.h: Moved taucs.h, amd.h, and umfpack.h into
1427 :     subdirectories.
1428 :    
1429 :     2003-12-08 Douglas Bates <bates@stat.wisc.edu>
1430 :    
1431 :     * src/taucs.h: Accidently referred to global header files
1432 :     instead of local files.
1433 :    
1434 :     2003-12-04 Douglas Bates <bates@stat.wisc.edu>
1435 :    
1436 :     * R/AllClass.R: Lots of changes. Removed all the lapack++ code
1437 :     and methods and replaced all classes with S4 classes.
1438 :    
1439 :     2003-04-19 Douglas Bates <bates@stat.wisc.edu>
1440 :    
1441 :     * R/det.R,man/det.Rd: Change name of det generic to determinant
1442 :    
1443 :     * src/R_LapackPP.cc: Change method of calculating determinants
1444 :    
1445 :     2003-02-03 Douglas Bates <bates@stat.wisc.edu>
1446 :    
1447 :     * DESCRIPTION (Version): removed empty data directory as requested
1448 :     by CRAN maintainers. Changed version number and date.
1449 :    
1450 :     2002-10-23 Douglas Bates <bates@stat.wisc.edu>
1451 :    
1452 :     * src/laindex.h: Applied patches from Brian Ripley for compilation
1453 :     under Windows.
1454 :    
1455 :     * Added configure.win and src/Makevars.win as requested by Brian
1456 :     Ripley.
1457 :    
1458 :     2002-05-03 Douglas Bates <bates@stat.wisc.edu>
1459 :    
1460 :     * src/lamatrix.h: Removing pre-1.2.0 compatibility code per Kurt
1461 :     Hornik.
1462 :    
1463 :     2002-04-24 Douglas Bates <bates@stat.wisc.edu>
1464 :    
1465 :     * configure.ac: Replaced configure.in with configure.ac
1466 :     contributed by Kurt Hornik.
1467 :    
1468 :     * aclocal.m4 (ac_clean_files): Replaced this with Kurt Hornik's
1469 :     version for R-1.5.0
1470 :    
1471 : maechler 512
1472 : bates 10 2001-12-10 Douglas Bates <bates@stat.wisc.edu>
1473 :    
1474 :     * man/eigen.Rd: Removed the .Alias in the example

root@r-forge.r-project.org
ViewVC Help
Powered by ViewVC 1.0.0  
Thanks to:
Vienna University of Economics and Business Powered By FusionForge