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revision 726, Thu May 12 14:59:04 2005 UTC revision 1247, Thu Apr 13 11:12:51 2006 UTC
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1  2005-05-11  Douglas Bates  <bates@bates1-home>  2006-04-12  Douglas Bates  <bates@stat.wisc.edu>
2    
3            * R/pedigree.R, R/AllClass.R, NAMESPACE: added a pedigree class
4            and methods for it.
5    
6    2006-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
7    
8            * R/dgCMatrix.R: add  storage.mode(.) <- "double" for "matrix"
9            arguments, such that M %*% 1:6 now works
10            * Tests/matprod.R: test the above
11    
12    2006-04-03  Douglas Bates  <bates@stat.wisc.edu>
13    
14            * R/lmer.R (qqmath,ranef.lmer-method): added a qqmath method for
15            the ranef.lmer class.
16    
17            * R/AllClass.R, NAMESPACE, R/lmer.R: Added a postVar generic and
18            methods to extract the posterior variances from the bVar slot.
19    
20    2006-03-30  Martin Maechler  <maechler@stat.math.ethz.ch>
21    
22            * R/dtCMatrix.R: allow coercion from  dgC* to triangular (dtC*)
23            * R/dsCMatrix.R: and symmetric (dsC*) 'Csparse' matrices.
24    
25            * R/Tsparse.R: Tsparse* -> Csparse* coercion now works and is tested in
26            * tests/simple: (extended)
27    
28            * R/sparseMatrix.R (isTriangular): now using much improved
29            * R/Auxiliaries.R (isTriC): new triangularity check for *CMatrix
30    
31    2006-03-23  Douglas Bates  <bates@stat.wisc.edu>
32    
33            * src/dsyMatrix.c (dsyMatrix_as_dspMatrix): Propagate DimNames
34            (problem report from Franklin Parlamis).  This should be done
35            generally.
36    
37    2006-03-21  Douglas Bates  <bates@stat.wisc.edu>
38    
39            * R/AllClass.R,lmer.R: Change the name of the lmer.ranef class to
40            ranef.lmer (like summary.lmer).  Add the coef.lmer class and
41            update the plot methods.
42    
43    2006-03-20  Douglas Bates  <bates@stat.wisc.edu>
44    
45            * R/lmer.R (resid and ranef methods):  Added methods for the
46            "residuals" and "resid" generic but only for linear mixed model
47            fits.  Changed the ranef method to return a list of data frames so
48            that the plot methods now work.
49    
50    2006-03-16  Douglas Bates  <bates@bates2>
51    
52            * src/dpoMatrix.c (dpoMatrix_chol): Require n > 0 in call to
53            dpotrf - otherwise the BLAS on Mac OS X complains and quits.
54    
55            * DESCRIPTION (Date): New release
56    
57    2006-03-15  Martin Maechler  <maechler@stat.math.ethz.ch>
58    
59            * DESCRIPTION (Version): 0.995-6  -- to be released to CRAN
60    
61            * data/KNex.rda: replacing 'mm' and 'y' by KNex <- list(mm=mm, y=y)
62            * man/KNex.Rd: and other help files
63            * tests/*.R: several ones needed adaption
64            * inst/doc/Comparisons.Rnw: dito
65    
66    2006-03-11  Martin Maechler  <maechler@stat.math.ethz.ch>
67    
68            * R/dgCMatrix.R (replCmat): "[<-" methods for dgCMatrix
69    
70            * tests/indexing.R: tests for new [<- methods for sparse matrices.
71    
72    2006-03-10  Martin Maechler  <maechler@stat.math.ethz.ch>
73    
74            * R/dgTMatrix.R (replTmat): "[<-" methods for dgTMatrix
75    
76            * R/Tsparse.R (.ind.prep): fix out-of-range indexing
77    
78    2006-03-08  Martin Maechler  <maechler@stat.math.ethz.ch>
79    
80            * R/dMatrix.R: enable things like  M [ M < 10 ]
81            * R/dgeMatrix.R: implement it
82    
83    2006-03-06  Martin Maechler  <maechler@stat.math.ethz.ch>
84    
85            * R/AllClass.R: define "summary.mer" and "*.lmer"
86            * R/lmer.R (summary): summary(<mer>) computes & returns the above;
87            * R/lmer.R (show): now works with summary()
88    
89    2006-03-04  Martin Maechler  <maechler@stat.math.ethz.ch>
90    
91            * R/dgCMatrix.R: finally direct "Arith"  dgC o dgC
92            * R/Auxiliaries.R (WhichintersectInd): and other utilities to
93                    support the above
94    
95    2006-02-07  Douglas Bates  <bates@stat.wisc.edu>
96    
97            * R/lmer.R (lmer): fix initial values of offset and weights for glm.fit.
98            Use glmFit$prior.weights for weights in a glmm.
99            Allow an option usePQL = FALSE to skip the PQL steps for the
100            Laplace method (and, in time, the AGQ method).
101    
102            * src/lmer.c (mer_factor): Move downdating and factoring of XtX
103            into a separate function internal_mer_Xfactor to be able to call
104            it from internal_bhat.
105    
106    2006-01-23  Martin Maechler  <maechler@stat.math.ethz.ch>
107    
108            * tests/Class+Meth.R (tstMatrixClass): function for much better
109            testing; now again of all actual classes.
110    
111            * src/Mutils.c (MAKE_TRIANGULAR_BODY, MAKE_SYMMETRIC_BODY):
112                    use macros and define make_d_matrix_* and make_i_matrix_*
113                    where _i_ is for the ldense routines:
114    
115            * src/ldense.c (ltrMatrix_as_lgeMatrix): provide functions
116            * src/ldense.c (lsyMatrix_as_lgeMatrix):
117    
118            * R/ldenseMatrix.R: use the above in setAs(*,"lgeMatrix")
119    
120    
121    2006-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
122    
123            * R/Matrix.R (Matrix): has become much "smarter" now auto-producing
124                    many different kinds of matrices.
125            * R/*.R: quite a few new methods were needed for R CMD check with
126                    new Matrix().  Very good for users playing around.
127    
128    
129    2006-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
130    
131            * src/dgeMatrix.c (dMatrix_validate): new
132            * src/Mutils.c (dense_nonpacked_validate): new
133    
134            * src/dtrMatrix.c (dtrMatrix_validate): improved/fixed
135    
136    
137    2006-01-14  Douglas Bates  <bates@stat.wisc.edu>
138    
139            * R/AllClass.R (compMatrix), (generalMatrix): new virtual classes
140    
141    2006-01-07  Douglas Bates  <bates@stat.wisc.edu>
142    
143            * DESCRIPTION (Version): 0.99-6 released to CRAN
144    
145            * src/dgBCMatrix.c (cscb_trcbsm): Fix due to Peter Dalgaard for
146            segfault in cases with multiple non-nested grouping factors.
147    
148    2006-01-03  Martin Maechler  <maechler@stat.math.ethz.ch>
149    
150            * DESCRIPTION (Version): 0.99-4 to be released to CRAN
151                    (Depends): also on 'utils'
152    
153            * R/AllClass.R (diagonalMatrix): new class with "ddi*" and "ldi*"
154            * R/diagMatrix.R (Diagonal): constructor and methods for
155            diagonal matrices
156    
157            * R/ltTMatrix.R: new "minimal methods"
158    
159    2005-12-12  Martin Maechler  <maechler@stat.math.ethz.ch>
160    
161            * R/AllGeneric.R (tcrossprod): 2-argument version; here, and for
162            all methods (and help files).
163    
164    2005-12-09  Martin Maechler  <maechler@stat.math.ethz.ch>
165    
166            * R/Auxiliaries.R (dimNamesCheck): fixed thinko -> bug
167                    for case (dimn.  op  no_dimn.)
168    
169    2005-11-14  Douglas Bates  <bates@stat.wisc.edu>
170    
171            * DESCRIPTION (Version): 0.99-2  released to CRAN
172    
173    2005-10-21  Douglas Bates  <bates@stat.wisc.edu>
174    
175            * R/lmer.R (simulate method): Fixed a drop=FALSE problem reported
176            by Julian Faraway.
177    
178    2005-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
179    
180            * R/Auxiliaries.R (try_as): new utility
181            * R/sparseMatrix.R: use try_as() in coercion to original class
182    
183    2005-09-30  Martin Maechler  <maechler@stat.math.ethz.ch>
184    
185            * src/dgCMatrix.c (double_to_csc): and dgeMatrix_to_csc()
186    
187    2005-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
188    
189            * R/Auxiliaries.R (dimNamesCheck): added
190    
191            * R/Matrix.R (as.array), (as.vector): new
192    
193    2005-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
194    
195            * R/Matrix.R (Matrix): get logical argument 'sparse' with a smart
196                    default.
197            * R/AllClass.R: move 'factors' slot toplevel "Matrix";
198                    "pMatrix" now contains "sparseMatrix"
199    
200    2005-09-26  Martin Maechler  <maechler@stat.math.ethz.ch>
201    
202            * tests/Class+Meth.R: new tests; t(t(m)) == m
203    
204            * src/dtCMatrix.c (tsc_transpose): add forgotten "diag" slot
205    
206            * src/dsTMatrix.c (dsTMatrix_as_dsCMatrix): bad typo (segfault!)
207            * src/dtTMatrix.c (dtTMatrix_as_dtCMatrix): new
208    
209            * R/dspMatrix.R: typo in "t" method
210    
211    2005-09-18  Douglas Bates  <bates@wisc.edu>
212    
213            * R/AllClass.R (TsparseMatrix), CsparseM* and RsparseM*
214            * R/Tsparse.R: instead of R/gTMatrix.R
215            * R/Csparse.R: new
216            * src/Tsparse.c (Tsparse_to_Csparse): new; -> cholmod_()
217            * src/Tsparse.c: new; many trivial methods calling cholmod_()
218            * src/Csparse.c (Csparse_to_Tsparse), transpose, (mat|cross)prod:
219                            via cholmod
220    
221    2005-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
222    
223            * R/Auxiliaries.R (non0ind): new function using new C code
224            * src/dgCMatrix.c (compressed_non_0_ij): new utility
225    
226    2005-09-15  Douglas Bates  <bates@localhost.localdomain>
227    
228            * src/chm_common.h: header file required by all C sources that
229            call CHOLMOD functions.  It defines a cholmod_common structure
230            called 'c' whose address is passed as the last argument to
231            (virtually) every CHOLMOD function.
232    
233            * src/Pattern.c: Simple example of the use of CHOLMOD.
234    
235            * src/init.c: initialize and finalize the cholmod_common structure.
236    
237            * src/Makefile: Added source packages CHOLMOD UMFPACK AMD COLAMD
238            LDL and CCOLAMD from the U. of Florida sparse matrix library.
239    
240    2005-09-08  Martin Maechler  <maechler@stat.math.ethz.ch>
241    
242            * inst/test-tools.R: new file collecting the utility functions used
243                    in ./tests/*.R
244    
245            * R/ddenseMatrix.R (cbind2): new methods for "numeric" and "matrix"
246            * R/Matrix.R (cbind2): methods for NULL and missing
247    
248    2005-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
249    
250            * R/AllClass.R: new "index" class for "[" and "[<-":
251                    First cut at "symmetricMatrix" and "triangularMatrix"
252            * R/gTMatrix.R (.ind.prep): new function;
253                    Logical and character indexing now work too.
254            * R/Matrix.R: cheap "[<-" methods for denseMatrix now work
255            * tests/indexing.R: new, including *.Rout.save
256            * tests/dgTMatrix.R: new
257    
258    2005-08-29  Douglas Bates  <bates@wisc.edu>
259    
260            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): Corrected the position
261            indicator pos not being updated.  Also enforced upper triangular
262            for symmetric case.  Need to coerce edges component of elements of
263            edge list - grr! (Why don't they define their classes cleanly?)
264    
265    2005-08-26  Martin Maechler  <maechler@stat.math.ethz.ch>
266    
267            * R/Matrix.R:  added first "[<-" methods; not yet functional
268            * R/denseMatrix.R: dito
269            * man/Subassign-methods.Rd: new help file for these
270    
271    2005-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
272    
273            * DESCRIPTION (Version): 0.98-6
274    
275            * R/denseMatrix.R: new file for "[" fallback methods for all dense
276            matrices.
277    
278    2005-08-19  Martin Maechler  <maechler@stat.math.ethz.ch>
279    
280            * src/lgCMatrix.c (lcsc_to_matrix): new; need for
281                    as( <logical>, "matrix")
282    
283            * R/pMatrix.R: coercion to "lgTMatrix"
284    
285            * R/gTMatrix.R: new virtual class to define "[" methods for.
286            * man/gTMatrix-class.Rd:
287            * General slight re-organization of where "[" methods are defined.
288              more to come.
289    
290    2005-08-18  Douglas Bates  <bates@wisc.edu>
291    
292            * DESCRIPTION (Version): 0.98-5  released to CRAN
293    
294            * src/dgTMatrix.c (graphNEL_as_dgTMatrix): add first graphNEL methods
295            * .....
296    
297    2005-08-18  Douglas Bates  <bates@localhost.localdomain>
298    
299            * R/lmer.R: Corrected naming scheme in mcmcsamp to work with lmer
300            or glmer objects.
301    
302    2005-08-17  Martin Maechler  <maechler@stat.math.ethz.ch>
303    
304            * DESCRIPTION (Version): 0.98-4 : upload to CRAN
305    
306    2005-08-16  Douglas Bates  <bates@localhost.localdomain>
307    
308            * R/HBMM.R: finish re-writing R-only code.
309    
310    2005-08-15  Douglas Bates  <bates@localhost.localdomain>
311    
312            * man/externalFormats.Rd: move documentation for writeHB and
313            writeMM here.
314    
315            * src/mmio.c: replace inclusion of <malloc.h> by <stdlib.h>
316            (suggested by Paul Roecker).
317    
318            * tests/validObj.R (assertError): Comment out test that is failing
319            after recent changes in r-devel.
320    
321    
322    2005-08-11  Martin Maechler  <maechler@stat.math.ethz.ch>
323    
324            * R/AllClass.R: intermediate virtual class "denseMatrix"
325            * man/denseMatrix-class.Rd
326            * NAMESPACE: export it, and also export
327            * man/unused-classes.Rd: "iMatrix", "zMatrix" and "ldenseMatrix"
328    
329    2005-08-10  Douglas Bates  <bates@wisc.edu>
330    
331            * DESCRIPTION (Version): 0.98-3 to CRAN
332    
333            * src/dtrMatrix.c (dtrMatrix_validate): fixed up validation and
334            matrix_solve code (which was really, really wrong).
335    
336    2005-08-07  Douglas Bates  <bates@wisc.edu>
337    
338            * DESCRIPTION (Version): 0.98-2
339    
340            * R/HBMM.R (readHB), (readMM): read Matrix Market formats
341    
342            * R/lmer.R (abbrvNms): new
343            * R/lmer.R (mcmcsamp): allow transformed parameters
344            * src/HBMM.c (Matrix_writeMatrixMarket): Added read/write routines
345            for the Harwell-Boeing and the MatrixMarket formats.
346    
347    2005-08-04  Martin Maechler  <maechler@stat.math.ethz.ch>
348    
349            * man/dtrMatrix-class.Rd: add examples
350            * man/dtpMatrix-class.Rd: ditto; plus note about PROBLEM
351    
352            * TODO: note the dtpMatrix (docu) bug
353    
354            * R/zzz.R (.onLoad): assignInNamespace("as.matrix", *, "base")
355            in order to ensure that new as.matrix() is used by old functions,
356            e.g., svd(), qr(), eigen(), dist(),..;
357                  apply(), also matplot() or pairs().
358    
359    
360    2005-08-03  Martin Maechler  <maechler@stat.math.ethz.ch>
361    
362            * R/lmer.R: add 'fixme' comments and move the linear vs glm check;
363              add comments about 'control' / lmerControl() arguments
364    
365    2005-07-27  Douglas Bates  <bates@wisc.edu>
366    
367            * man/sleepstudy.Rd: Added the sleep data set.
368            * DESCRIPTION (Version): 0.98-1  released to CRAN
369    
370    2005-07-12  Douglas Bates  <bates@wisc.edu>
371            * man/sleepstudy.Rd: Added the sleep data set.
372    
373            * R/lmer.R (glmmMCMC): Added PACKAGE = "Matrix" in a couple of
374            .Call calls that were producing spurious output.
375    
376    2005-07-05  Douglas Bates  <bates@wisc.edu>
377    
378            * R/lmer.R (lmer): stored updated variance component estimates in
379            mer object for the generalized model.  (Bug reported by Renaud
380            Lancelot).
381    
382    2005-07-03  Douglas Bates  <bates@wisc.edu>
383    
384            * src/lmer.c (glmer_devAGQ): Added AGQ for single grouping factor,
385            unidimensional case.
386    
387    2005-06-08  Douglas Bates  <bates@wisc.edu>
388    
389            * DESCRIPTION (Version): 0.96-1
390    
391            * moved  lmer-class' R and C code moved from lme4 to here
392    
393    2005-06-04  Douglas Bates  <bates@wisc.edu>
394    
395            * R/dgCMatrix.R: Call to csc_matrix_mm used undefined arguments
396            (reported by Guissepe Ragusa <gragusa@ucsd.edu>)
397    
398    2005-06-02  Douglas Bates  <bates@wisc.edu>
399    
400            * src/Makefile.win: Forgot to update this when Makefile changed.
401    
402    2005-05-11  Douglas Bates  <bates@wisc.edu>
403    
404          * src/dgCMatrix.c (csc_transpose): Simplified function fixing a          * src/dgCMatrix.c (csc_transpose): Simplified function fixing a
405          bug reported by Kurt Hornik and Michael Hahsler.          bug reported by Kurt Hornik and Michael Hahsler.
406    
407  2005-05-10  Douglas Bates  <bates@bates1-home>  2005-05-10  Douglas Bates  <bates@wisc.edu>
408    
409          * src/lgCMatrix.c (Matrix_lgClgCmm): Implementation of methods for          * src/lgCMatrix.c (Matrix_lgClgCmm): Implementation of methods for
410          logical sparse matrices.  These will also be used in the symbolic          logical sparse matrices.  These will also be used in the symbolic
# Line 12  Line 413 
413          * src/dsCMatrix.c (dsCMatrix_matrix_solve): Copied the dimensions          * src/dsCMatrix.c (dsCMatrix_matrix_solve): Copied the dimensions
414          of b to the result.  Fixes bug reported by Jean.Coursol@math.u-psud.fr          of b to the result.  Fixes bug reported by Jean.Coursol@math.u-psud.fr
415    
416  2005-05-06  Douglas Bates  <bates@bates1-home>  2005-05-06  Douglas Bates  <bates@wisc.edu>
417    
418          * src/dgeMatrix.c (dgeMatrix_colsums): Added an implementation of          * src/dgeMatrix.c (dgeMatrix_colsums): Added an implementation of
419          colMeans, colSums, rowMeans and rowSums.          colMeans, colSums, rowMeans and rowSums.
420    
421  2005-04-18  Douglas Bates  <bates@bates1-home>  2005-04-18  Douglas Bates  <bates@wisc.edu>
422    
423          * src/lgCMatrix.[ch]: code for _validate method and stub for          * src/lgCMatrix.[ch]: code for _validate method and stub for
424          multiplication operation.          multiplication operation.
# Line 30  Line 431 
431    
432          * src/{many files}: Tighten code by using ALLOC_SLOT.          * src/{many files}: Tighten code by using ALLOC_SLOT.
433    
434  2005-04-15  Douglas Bates  <bates@bates1-home>  2005-04-15  Douglas Bates  <bates@wisc.edu>
435    
436          * R/AllClass.R: Add lgTMatrix and lgCMatrix classes          * R/AllClass.R: Add lgTMatrix and lgCMatrix classes
437    
438          * DESCRIPTION: Eliminate import of stats.          * DESCRIPTION: Eliminate import of stats.
439    
440    
441  2005-04-06  Douglas Bates  <bates@bates1-home>  2005-04-06  Douglas Bates  <bates@wisc.edu>
442    
443          * R/AllClass.R : add logical sparse matrix classes          * R/AllClass.R : add logical sparse matrix classes
444    
# Line 46  Line 447 
447          * R/dgTMatrix.R: add "[" method for triplet matrices          * R/dgTMatrix.R: add "[" method for triplet matrices
448          * R/sparseMatrix.R: and other sparse ones; --> add show() for sparse          * R/sparseMatrix.R: and other sparse ones; --> add show() for sparse
449    
450  2005-03-31  Douglas Bates  <bates@bates1-home>  2005-03-31  Douglas Bates  <bates@wisc.edu>
451    
452          * DESCRIPTION (Version): release 0.95-5 to CRAN          * DESCRIPTION (Version): release 0.95-5 to CRAN
453    
# Line 72  Line 473 
473          * tests/dpoMatrix.R: tests should now be less platform dependent;          * tests/dpoMatrix.R: tests should now be less platform dependent;
474            also run for R 2.1.0; using as.matrix()            also run for R 2.1.0; using as.matrix()
475    
476  2005-03-15  Douglas Bates  <bates@bates1-home>  2005-03-15  Douglas Bates  <bates@wisc.edu>
477    
478          * R/pMatrix.R: "pMatrix" class added          * R/pMatrix.R: "pMatrix" class added
479          * ....          * ....
480    
481  2005-03-14  Douglas Bates  <bates@bates1-home>  2005-03-14  Douglas Bates  <bates@wisc.edu>
482    
483          * R/dtpMatrix.R: Add unpack method and an example.          * R/dtpMatrix.R: Add unpack method and an example.
484    
# Line 92  Line 493 
493            crossprod() and "%*%" methods added; tests, too.            crossprod() and "%*%" methods added; tests, too.
494          * tests/matprod.R: new, for testing these          * tests/matprod.R: new, for testing these
495    
496  2005-03-03  Douglas Bates  <bates@bates1-home>  2005-03-03  Douglas Bates  <bates@wisc.edu>
497    
498          * src/lmer.c (lmer_fitted): Added.          * src/lmer.c (lmer_fitted): Added.
499    
500  2005-03-02  Douglas Bates  <bates@bates1-home>  2005-03-02  Douglas Bates  <bates@wisc.edu>
501    
502          * R/dsTMatrix.R: Conversion from dsTMatrix to dsCMatrix          * R/dsTMatrix.R: Conversion from dsTMatrix to dsCMatrix
503    
504  2005-02-28  Douglas Bates  <bates@bates1-home>  2005-02-28  Douglas Bates  <bates@wisc.edu>
505    
506          * src/*.c,po/,inst/po: Internationalization and localization of          * src/*.c,po/,inst/po: Internationalization and localization of
507          the package.          the package.
# Line 148  Line 549 
549    
550          * */* : almost complete reorganization of classes.          * */* : almost complete reorganization of classes.
551    
552  2005-01-26  Douglas Bates  <bates@bates7>  2005-01-26  Douglas Bates  <bates@wisc.edu>
553    
554          * R/AllGeneric.R: Added matrix exponential generic expm and a method          * R/AllGeneric.R: Added matrix exponential generic expm and a method
555          for the geMatrix class.          for the geMatrix class.
556    
557  2005-01-24  Douglas Bates  <bates@bates7>  2005-01-24  Douglas Bates  <bates@wisc.edu>
558    
559          * src/Makefile (clean): Remove *.a and *.so          * src/Makefile (clean): Remove *.a and *.so
560    
561          * man/cscBlocked-class.Rd: Remove reference to the lmer-class.          * man/cscBlocked-class.Rd: Remove reference to the lmer-class.
562    
563  2005-01-23  Douglas Bates  <bates@bates7>  2005-01-23  Douglas Bates  <bates@wisc.edu>
564    
565          * src/lmer.c (Lind): Definition of Lind was backwards.  This only          * src/lmer.c (Lind): Definition of Lind was backwards.  This only
566          had an effect in cases with more than 2 grouping factors.          had an effect in cases with more than 2 grouping factors.
567    
568  2005-01-03  Douglas Bates  <bates@bates1-home>  2005-01-03  Douglas Bates  <bates@wisc.edu>
569    
570          * src/lmeRep.c (lmer_variances): change from lmeRep to lmer          * src/lmeRep.c (lmer_variances): change from lmeRep to lmer
571    
572  2004-12-23  Douglas Bates  <bates@bates1-home>  2004-12-23  Douglas Bates  <bates@wisc.edu>
573    
574          * src/init.c (R_init_Matrix): Reorder calls to R_registerRoutines          * src/init.c (R_init_Matrix): Reorder calls to R_registerRoutines
575          and R_useDynamicSymbols (suggested by B.D.Ripley).          and R_useDynamicSymbols (suggested by B.D.Ripley).
576    
577  2004-12-14  Douglas Bates  <bates@bates1-home>  2004-12-14  Douglas Bates  <bates@wisc.edu>
578    
579          * R/sscMatrix.R: Add determinant methods          * R/sscMatrix.R: Add determinant methods
580    
581          * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion          * src/triplet.[ch],src/init.c (triplet_to_matrix): Add a coercion
582          for tripletMatrix to matrix.          for tripletMatrix to matrix.
583    
584  2004-12-13  Douglas Bates  <bates@bates1-home>  2004-12-13  Douglas Bates  <bates@wisc.edu>
585    
586          * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is          * R/AllClass.R (.onLoad): Eliminate the bbCrosstab class, which is
587          no longer used.          no longer used.
# Line 192  Line 593 
593          for multivariate random effects with multiple grouping factors.          for multivariate random effects with multiple grouping factors.
594          Fixes part but not all of #15.          Fixes part but not all of #15.
595    
596  2004-12-03  Douglas Bates  <bates@bates1-home>  2004-12-03  Douglas Bates  <bates@wisc.edu>
597    
598          * src/lmeRep.c (lmeRep_factor): order of operations for multiple          * src/lmeRep.c (lmeRep_factor): order of operations for multiple
599          scalar grouping factors corrected.          scalar grouping factors corrected.
600    
601  2004-11-29  Douglas Bates  <bates@bates1-home>  2004-11-29  Douglas Bates  <bates@wisc.edu>
602    
603          * src/bCrosstab.c: remove diag_update which is no longer used          * src/bCrosstab.c: remove diag_update which is no longer used
604    
605  2004-11-16  Douglas Bates  <bates@bates1-home>  2004-11-16  Douglas Bates  <bates@wisc.edu>
606    
607          * src/Metis_utils.c: Move metis.h include to C sources so that the          * src/Metis_utils.c: Move metis.h include to C sources so that the
608          .h file can be included.          .h file can be included.
609    
610  2004-11-12  Douglas Bates  <bates@bates1-home>  2004-11-12  Douglas Bates  <bates@wisc.edu>
611    
612          * src/LU.c,geMatrix.c,trMatrix.c, etc.:          * src/LU.c,geMatrix.c,trMatrix.c, etc.:
613          Complete allocation of slots in NEW_OBJECT.          Complete allocation of slots in NEW_OBJECT.
614    
615          * src/Mutils.h: Moved list of symbols to an include file          * src/Mutils.h: Moved list of symbols to an include file
616    
617  2004-11-11  Douglas Bates  <bates@bates1-home>  2004-11-11  Douglas Bates  <bates@wisc.edu>
618    
619          * src/geMutils.c (Matrix_init): remove unused function          * src/geMutils.c (Matrix_init): remove unused function
620    
621  2004-11-10  Douglas Bates  <bates@bates1-home>  2004-11-10  Douglas Bates  <bates@wisc.edu>
622    
623          * src/cscMatrix.c (csc_to_imagemat): removed unused function          * src/cscMatrix.c (csc_to_imagemat): removed unused function
624    
625  2004-11-05  Douglas Bates  <bates@bates1-home>  2004-11-05  Douglas Bates  <bates@wisc.edu>
626    
627          * src/Makefile.win (SOURCES_C): Keep consistent with Makefile          * src/Makefile.win (SOURCES_C): Keep consistent with Makefile
628    
629  2004-10-27  Douglas Bates  <bates@bates1-home>  2004-10-27  Douglas Bates  <bates@wisc.edu>
630    
631          * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls          * R/pdmatrix.R: remove PACKAGE="Matrix" in .Call calls
632    
633  2004-10-04  Douglas Bates  <bates@bates1-home>  2004-10-04  Douglas Bates  <bates@wisc.edu>
634    
635          * src/init.c: Created R_init_Matrix and added registration of C          * src/init.c: Created R_init_Matrix and added registration of C
636          routines.          routines.
637    
638  2004-10-02  Douglas Bates  <bates@bates1-home>  2004-10-02  Douglas Bates  <bates@wisc.edu>
639    
640          * R/tripletMatrix.R: Force a require(lattice) for the image methods.          * R/tripletMatrix.R: Force a require(lattice) for the image methods.
641    
642  2004-06-15  Douglas Bates  <bates@bates7>  2004-06-15  Douglas Bates  <bates@wisc.edu>
643    
644          * man/trMatrix-class.Rd: Escape the % chars in .Rd files.          * man/trMatrix-class.Rd: Escape the % chars in .Rd files.
645    

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