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revision 1624, Wed Oct 11 15:00:11 2006 UTC revision 1904, Sat Jun 16 18:34:05 2007 UTC
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1    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/kronecker.R: fix typo (could lead to inf.recursion)
4            * test/simple.R: testing that
5    
6            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
7            method (which can have arguments, show() can't).
8    
9    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
10    
11            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
12              added dgCMatrix_colSums for [col,row][Sums,Means]
13    
14    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
15    
16            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
17              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
18              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
19            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
20              class
21            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
22              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
23              row names to store the levels - duh!  Added an example.
24    
25    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
26    
27            * src/Csparse.c (Csparse_validate): check for *repeated* entries
28            thanks to example from Christian Buchta; with a test here:
29            * tests/simple.R:
30    
31    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
32    
33            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
34            of colSums(*, sparseResult = TRUE)
35    
36    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
37    
38            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
39            'na.rm = FALSE' as "everywhere" else in R.
40    
41    2007-06-05 Douglas Bates <bates@stat.wisc.edu>
42    
43            * [r4421] src/CSparse_install.sh: Modify for new organization of
44              CSparse package
45            * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
46              SuiteSparse
47            * [r4426] src/Makefile: add ./UFconfig to the include path for
48              compilation
49            * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
50            * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
51              src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
52    
53    2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
54    
55            * R/Auxiliaries.R (emptyColnames): + argument msg.if.not.empty, used in
56            * R/sparseMatrix.R (prSpMatrix): now gives a message about
57            suppressed column names.
58    
59    2007-06-04 17:13  Douglas Bates <bates@stat.wisc.edu>
60    
61            * [r4418] src/Csparse.c, src/HBMM.c, src/Mutils.c, src/Mutils.h,
62              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dgCMatrix.c,
63              src/dgeMatrix.c, src/dpoMatrix.c, src/dpoMatrix.h, src/dppMatrix.c,
64              src/dppMatrix.h, src/dsCMatrix.c, src/dspMatrix.c, src/dspMatrix.h,
65              src/dsyMatrix.c, src/dsyMatrix.h, src/dtpMatrix.c, src/dtrMatrix.c:
66              Remove warnings after change to const char* CHAR
67    
68    2007-06-04 17:11  Douglas Bates <bates@stat.wisc.edu>
69    
70            * [r4417] inst/include/Matrix_stubs.c, inst/include/cholmod.h: Corrected
71              type of M_cholmod_ssmult
72    
73    2007-06-03 14:42  Douglas Bates <bates@stat.wisc.edu>
74    
75            * [r4412] inst/include/Matrix_stubs.c, inst/include/cholmod.h,
76              src/init.c: Yet another cholmod export - cholmod_ssmult
77    
78    2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>
79    
80            * NAMESPACE: exported drop0(), since
81            * man/drop0.Rd: I have seen several cases, I really wanted to use
82            it, so our users may want too.
83    
84    2007-05-22  Martin Maechler  <maechler@stat.math.ethz.ch>
85    
86            * man/colSums.Rd: separately document colSums() etc, since these
87            have the extra argument 'sparseResult'.
88    
89    2007-05-21  Martin Maechler  <maechler@stat.math.ethz.ch>
90    
91            * R/sparseMatrix.R (spMatrix): utility (T)sparse Matrix constructor;
92            * man/spMatrix.Rd: docu., including examples
93    
94            * R/Auxiliaries.R (sp.colMeans): etc, using a patched callGeneric(),
95            in order to make colMeans() etc fast *and* correct.
96            * R/sparseVector.R (replSPvec): "[<-" functionality for
97            sparseVectors; tested in
98            * tests/simple.R:
99    
100    2007-05-19  Martin Maechler  <maechler@stat.math.ethz.ch>
101    
102            * R/sparseMatrix.R (print.sparseSummary): and summary() method for
103            (very) sparse Matrices; output similar to Matlab's print().
104    
105    2007-05-17  Douglas Bates  <bates@stat.wisc.edu>
106    
107            * src/HBMM.c (Matrix_writeMatrixMarket): Write 1-based, not
108            0-based, indices (Jose Quesada <quesada@gmail.com>).
109    
110    2007-05-16  Douglas Bates  <bates@stat.wisc.edu>
111    
112            * R/CHMfactor.R: Added solve methods for a CHMfactor object.
113    
114    2007-05-16  Martin Maechler  <maechler@stat.math.ethz.ch>
115    
116            * R/Auxiliaries.R (sparsapply): new utility, much faster than
117            tapply1() for large sparse matrices.
118    
119    2007-05-15  Martin Maechler  <maechler@stat.math.ethz.ch>
120    
121            * R/Matrix.R (dim<-): reshape now via sparseVector.
122    
123            * R/sparseVector.R: methods and function for
124            * R/AllClass.R: new "sparseVector" class and daughters.
125            * NAMESPACE: export new classes
126    
127    2007-05-14  Martin Maechler  <maechler@stat.math.ethz.ch>
128    
129            * DESCRIPTION (Version): 0.99875-1
130            * src/Makefile.win: also remove Lapack code from here (cf. 04-25).
131    
132    2007-05-11  Martin Maechler  <maechler@stat.math.ethz.ch>
133    
134            * R/Tsparse.R ([, Tsparse): fix last case: *duplicated*, symmetric
135            indexing
136            * tests/indexing.R: test set for that.
137    
138    2007-05-08  Martin Maechler  <maechler@stat.math.ethz.ch>
139    
140            * R/Tsparse.R (replTmat): fix the case of *duplicated* index
141            entries.
142            * tests/indexing.R(out): add regression test for it
143    
144    2007-04-30  Martin Maechler  <maechler@stat.math.ethz.ch>
145    
146            * R/(l(dense|sparse))?Matrix.R (!): use 'x', not 'e1' as argument
147            name for "!" method definitions.
148    
149    2007-04-26  Martin Maechler  <maechler@stat.math.ethz.ch>
150    
151            * R/Tsparse.R (intI): new utility, used for "[" :
152                    Cleanup up there, and fixes for duplicated indices - more TODO!
153    
154            * tests/indexing.R(out): more tests
155    
156    2007-04-25  Douglas Bates  <bates@stat.wisc.edu>
157    
158            * DESCRIPTION,src/Makefile: require R>= 2.5.0 and remove Lapack
159            code that is now part of the R Lapack library.
160    
161            * src/init.c,inst/include/{Matrix_stubs.c,cholmod.h}:export
162            cholmod_factorize_p (used in lme4 for GLMMs and NLMMs).
163    
164    2007-04-21  Martin Maechler  <maechler@stat.math.ethz.ch>
165    
166            * R/Matrix.R (image): method for all Matrices, not just sparse ones.
167    
168    2007-04-17  Martin Maechler  <maechler@stat.math.ethz.ch>
169    
170            * R/Auxiliaries.R (tapply1): unname(.) -> colSums() etc don't end
171            up with extraneous names '0'...'<n-1>'
172    
173    2007-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
174    
175            * R/dgTMatrix.R (mat2dgT): care about NAs
176    
177    2007-04-11  Martin Maechler  <maechler@stat.math.ethz.ch>
178    
179            * R/kronecker.R: triangularity preserving methods
180    
181    2007-03-27  Martin Maechler  <maechler@stat.math.ethz.ch>
182    
183            * R/kronecker.R: new file collecting kronecker() methods in one
184                    place.  Goal: become much faster!
185    
186    2007-03-23  Martin Maechler  <maechler@stat.math.ethz.ch>
187    
188            * src/dtCMatrix.c (dtCMatrix_solve): use the new code from Kasper
189            Kristensen based cs_spsolve() instead of _lsolve & _usolve which
190            can be much faster.
191    
192            * tests/matprod.R: add regression tests for these (upper & lower).
193    
194    2007-03-19  Martin Maechler  <maechler@stat.math.ethz.ch>
195    
196            * R/Matrix.R (diff): method for our Matrices.
197    
198            * R/sparseMatrix.R (isDiagonal): check dim()!
199    
200    2007-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
201    
202            * R/Matrix.R (dim<-): new method for "reshape()" built on a
203            proposal from Tamas Papp.
204    
205    2007-03-16  Martin Maechler  <maechler@stat.math.ethz.ch>
206    
207            * R/AllGeneric.R: remove all  if(!isGeneric(.))  clauses
208    
209            * R/zzz.R (.onLoad, .onUnload): do *not* leave bind_activation(TRUE);
210            rather define and export  cBind() and rBind() only.
211            --> useRs *must* change code that used to have cbind()/rbind() !!
212    
213            * R/bind.R: change tests from cbind() to cBind() and similarly to rBind()
214            * R/bind.Rout.save: ditto
215    
216    2007-02-16  Douglas Bates  <bates@r-project.org>
217    
218            * DESCRIPTION (Date, Version): 0.9975-11 with new date
219            * src/dgCMatrix.c (R_to_CMatrix, compressed_to_TMatrix): remove
220            const modifier on declaration of the array 'valid'
221    
222    2007-02-12  Douglas Bates  <bates@stat.wisc.edu>
223    
224            * R/CHMfactor.R: Add image method (coercion to sparseMatrix).
225    
226    2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>
227    
228            * DESCRIPTION (Date, Version): 0.9975-10 with new date.
229    
230            * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix
231            * tests/simple.R: test the above and some of these coercions:
232    
233            * R/nsparseMatrix.R: coercing "Csparse" to "lsparseMatrix";
234                    be careful to avoid infinite recursion, using new coercions in
235            * R/ngCMatrix.R and nsC... and ntC...
236            * R/lsparseMatrix.R: ditto
237    
238            * R/SparseM-conv.R: more conversion, notably for triplet matrices.
239    
240            * src/dgCMatrix.c (R_to_C_Matrix): port Doug's fix and
241            * R/Rsparse.R: reactivate .Call()s
242    
243            * tests/Class+Meth.R: a bit more on actual classes
244    
245    2007-02-04  Douglas Bates  <bates@stat.wisc.edu>
246    
247            * src/dgCMatrix.c (compressed_to_TMatrix): fix memory bug using strdup()
248    
249    2007-02-03  Martin Maechler  <maechler@stat.math.ethz.ch>
250    
251            * DESCRIPTION (Version): 0.9975-10 to upload
252    
253            * tests/Class+Meth.R (tstMatrixClass): require coercions to
254            specific classes less unconditionally.
255    
256            * R/Auxiliaries.R: get rid of as_Tsparse() and as_Rsparse()
257    
258            * R/Tsparse.R (triu): etc, use as(*, "TsparseMatrix") instead of as_Tsparse()
259    
260            * R/Rsparse.R (.R.2.T): R-level workaround using compressed_to_TMatrix.
261            * R/Rsparse.R (.R.2.C): R-level workaround since C-level
262            R_to_CMatrix segfaults on one platform.
263            Eliminate most coercion method to *specific* classes, and replace
264            with virtual classes coercions.
265    
266    
267    2007-02-01  Martin Maechler <maechler@stat.math.ethz.ch>
268    
269            * src/init.c: export the CHM...._validate() placeholders, since
270            they *are* called.
271    
272            * tests/Class+Meth.R (classCanCoerce): and starting to test
273            all as(<from>, <to>)
274    
275    2007-01-30  Martin Maechler  <maechler@stat.math.ethz.ch>
276    
277            * R/Tsparse.R ([): more care when subsetting triangular Tsparse
278            * tests/indexing.R: tested now
279            * tests/indexing.Rout.save: updated
280    
281            * src/Csparse.c (Csparse_to_dense): use Rkind = -1 for PATTERN to
282            * src/chm_common.c (chm_dense_to_SEXP): return "ngeMatrix" when
283            appropriate.
284    
285            * NAMESPACE: export a trivial
286            * R/Matrix.R: drop() Matrix-method
287    
288            * R/AllClass.R: moved all prototypes to virtual super classes.
289    
290            * R/Rsparse.R: many more coercions to have less exceptions in
291            * tests/Class+Meth.R:
292    
293            * R/Ops.R (Compare): tweak for case with NA
294            * tests/simpl.R: hence another 'FIXME' eliminated
295    
296    2007-01-29  Martin Maechler  <maechler@stat.math.ethz.ch>
297    
298            * R/diagMatrix.R (solve): the obvious methods for diagonalMatrix
299            objects.
300    
301            * tests/Class+Meth.R (tstMatrixClass): now testing diag(), nnzero(),
302              and more of "!", "&", "|", all, any; coercions
303    
304            * R/Rsparse.R: many coercions (which enable quite a few other
305            methods), thanks to enhancements in
306            * src/dgCMatrix.c (R_to_CMatrix): new, and
307            * src/dgCMatrix.c (compressed_to_TMatrix): now for (d,l,n) ,
308            symmetric & triangular and ..RMatrix objects.
309    
310            * src/TMatrix_as.c (Matrix_T_as_DENSE,Matrix_T_as_GENERAL):
311            renamed file from src/dsTMatrix.c;
312            now dealing with symmetric and triangular Tsparse coercions, both
313            to dense and general.
314    
315    2007-01-27  Martin Maechler  <maechler@stat.math.ethz.ch>
316    
317            * src/dsTMatrix.c: has now "l" and "n" methods besides the "d" ones.
318    
319            * R/Ops.R (Arith): <dgCMatrix> o <numeric> now remains sparse
320            where sensible when the <numeric> is of length > 1.
321    
322    2007-01-26  Martin Maechler  <maechler@stat.math.ethz.ch>
323    
324            * R/Matrix.R ([<-): for M[] <- value: fix length
325    
326    2007-01-25  Martin Maechler  <maechler@stat.math.ethz.ch>
327    
328            * R/Auxiliaries.R (n2l_Matrix): new, to be used in
329            * R/ndenseMatrix.R: new coercions n* -> l*
330    
331    2007-01-22  Martin Maechler  <maechler@stat.math.ethz.ch>
332    
333            * R/triangularMatrix.R: new file; simple triu() and tril() methods.
334    
335            * R/Ops.R ("Logic"): and other "Ops", many updates
336    
337    2007-01-18  Martin Maechler  <maechler@stat.math.ethz.ch>
338    
339            * src/Mutils.h (SET_DimNames): new utility
340    
341            * R/Auxiliaries.R (nnzero): improved and now exported via
342    
343            * NAMESPACE: + nnzero(); length() == prod(dim(.)) method for all "Matrix" objects
344    
345    2007-01-17  Martin Maechler  <maechler@stat.math.ethz.ch>
346    
347            * R/diagMatrix.R (!): fix typo.
348    
349    2007-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
350    
351            * R/Auxiliaries.R (as_Csparse): and quite a few others:
352                    allow to pass class definition --> speedup
353            * R/sparseMatrix.R: apply the above
354    
355            * R/Csparse.R: coercion Csparse* to dense* now preserves shape properties.
356    
357            * src/Mutils.h (mMatrix_as_geMatrix): new, based on
358            * src/Mutils.c (dup_mMatrix_as_geMatrix): new; generalization of
359            old dup_mMatrix_as_dgeMatrix), eliminating a long-standing "FIXME".
360    
361            * src/dense.c (dense_to_Csparse): use new mMatrix_as_geMatrix()
362    
363            * R/denseMatrix.R (.dense2C): based on dense_to_Csparse: name it,
364            and use it for "sparse*" as well, since it's faster than the
365            as_Csparse(.) way.
366    
367    2007-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
368    
369            * R/Ops.R ("Logic"): more methods, notably an  <lgC> o <lgC> one.
370    
371    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
372    
373            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
374            as method for   M[ ij ] <- v
375            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
376    
377            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
378            FALSE answer
379    
380            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
381            * tests/indexing.R: test it, and some of the above
382    
383    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
384    
385            * R/Auxiliaries.R (is_duplicatedT): new utility
386    
387    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
388    
389            * src/init.c (R_init_Matrix): export cholmod_scale
390    
391    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
392    
393            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
394            base::as.matrix to (x, ...)
395    
396    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
397    
398            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
399            file; start using "Logic", hence
400    
401            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
402            * NAMESPACE: import and export "Logic"
403    
404    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
405    
406            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
407            only needed previously to R version 2.5.0.
408    
409    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
410    
411            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
412    
413            * R/Tsparse.R (replTmat): fix subassignment of triangular
414            * R/Csparse.R (replCmat): ditto
415            * tests/indexing.R: more tests, incl the above fix
416    
417    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
418    
419            * R/Auxiliaries.R (drop0): extend for non CSparse
420            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
421    
422            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
423                    use uplo correctly (!); other places: use uplo_P() macro
424    
425            * R/Csparse.R (replCmat): call diagU2N() when needed
426            * R/Tsparse.R (replTmat): ditto
427    
428            * src/dtCMatrix.c (tCMatrix_validate): new
429            * src/dtTMatrix.c (tTMatrix_validate): new, used in
430            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
431    
432            * R/diagMatrix.R (replDiag): to use in [<-
433    
434    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
435    
436            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
437                    also more general diagU2N().
438    
439    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
440    
441            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
442            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
443    
444    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
445    
446            * tests/bind.R: a few more cases
447            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
448    
449            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
450            * R/ddenseMatrix.R (cbind2/rbind2)
451            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
452            * tests/indexing.R
453            * tests/indexing.Rout.save: updated
454    
455    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
456    
457            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
458            * tests/indexing.R
459    
460    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
461    
462            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
463            align with proper position of "0", i.e., right for integers.
464            argument 'align' by default is "fancy".
465    
466    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
467    
468            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
469            * R/Csparse.R: and fix "Compare" for more cases.
470            * tests/Class+Meth.R: test some of these (m == m, m != m)
471    
472    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
473    
474            * R/lsparseMatrix.R: all() and any() methods
475            * R/ldenseMatrix.R:      ditto
476            * NAMESPACE, R/Matrix.R: ditto
477    
478            * man/all-methods.Rd: document them minimally
479    
480            * tests/simple.R: add a few examples for these
481    
482    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
483    
484            * R/Tsparse.R ([): fix long standing typo in symmetric case
485            * man/dsCMatrix-class.Rd: add example exhibiting the above case
486    
487    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
488    
489            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
490            to LL before converting to a sparse matrix. (The LDL form can be
491            converted to a sparse matrix but it is implicitly a unit
492            triangular matrix and a diagonal matrix overwritten on the diagonal.)
493    
494    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
495    
496            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
497    
498    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
499    
500            * DESCRIPTION (Version): updated -> release 0.9975-7
501            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
502    
503    2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
504    
505            * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method
506    
507    2006-11-29  Douglas Bates  <bates@stat.wisc.edu>
508    
509            * src/dgeMatrix.c (dgeMatrix_solve): Check error code from dgetri.
510            * tests/dg_Matrix.R: Add Barry Rowlingson's test of a matrix that
511            is exactly singular.
512    
513    2006-11-07  Martin Maechler  <maechler@stat.math.ethz.ch>
514    
515            * DESCRIPTION (Date): updated -> release 0.9975-6
516    
517    2006-11-06  Martin Maechler  <maechler@stat.math.ethz.ch>
518    
519            * R/Csparse.R (replCmat): symmetric indexing of symmetric matrix
520            now returns symmetric.
521    
522            * R/zzz.R ("diag<-"): replace "diag<-" in base for R <= 2.4.x
523    
524            * R/Matrix.R (.M.sub.i.2col):  new, for  M[ cbind(i,j) ] indexing.
525            * R/Matrix.R (.M.repl.i.2col): new, for  M[ cbind(i,j) ] <- value
526    
527            * R/Auxiliaries.R (.type.kind): added
528    
529    2006-11-04  Martin Maechler  <maechler@stat.math.ethz.ch>
530    
531            * src/cs.[ch]: updated to CSparse Version 2.0.3 by simply
532            running src/CSparse_install.sh
533    
534            * R/denseMatrix.R: "[": keep symmetric on symmetric indexing.
535    
536    2006-11-03  Martin Maechler  <maechler@stat.math.ethz.ch>
537    
538            * src/dsCMatrix.c (dsCMatrix_Csparse_solve): new
539            * R/dsCMatrix.R (solve): "fully-sparse" using the above.
540    
541            * R/AllClass.R: "pMatrix" now also inherits from "generalMatrix"
542    
543            * tests/Class+Meth.R (tstMatrixClass): now assure
544            the (important in method programming) property :
545    
546                    ###>>  Every "Matrix" is either
547                    ###>>  "general*", "symmetric*", "triangular*" or "diagonal*"
548    
549                    (where "*" stands for "Matrix")
550    
551            * R/Auxiliaries.R (diagU2N): now .Call()s Csparse_diagU2N for <Csparse>
552    
553            * R/dMatrix.R (Compare(<dMatrix>,<dMatrix>): update and
554            * tests/validObj.R: checks for "comparison"
555    
556            * R/sparseMatrix.R ([): improved indexing for sparse;
557                    trying to keep <symmetric>[ n, n] symmmetric
558    
559            * tests/indexing.R: indexing for logical sparse now ok
560    
561    
562    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
563    
564            * src/Tsparse.c: use xTsparse_validate() , and hence remove
565    
566            * src/{ltC,lsC,lgT}Matrix.[ch]: removed
567    
568    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
569    
570            * R/AllClass.R (Matrix-class): check length of dimnames in validity.
571    
572            * tests/simple.R: validObject() checking the above.
573    
574            * src/dgCMatrix.c (xCMatrix_validate): new, small and simple,
575            replacing both dgCMatrix_validate and lgCM*.
576    
577            * src/Csparse.c (Csparse_dense_prod, etc): do not lose dimnames;
578            fix dimnames setting in other places.
579            * src/chm_common.c (chm_dense_to_SEXP): now can pass dimnames
580    
581    2006-11-01  Martin Maechler  <maechler@stat.math.ethz.ch>
582    
583            * R/Csparse.R,src/Csparse.c, etc: tcrossprod(<CsparseM>,<CsparseM>)
584    
585            * R/sparseMatrix.R (isSymmetric): drop 'factors' slot for
586            symmetry test, via
587            * R/Auxiliaries.R (.as.dgC.0.factors):
588    
589    2006-11-01  Douglas Bates  <bates@r-project.org>
590    
591            * R/Csparse.R,src/Csparse.c,tests/matprod.R,
592            man/CsparseMatrix-class.Rd: crossprod(<CsparseMatrix>,
593            <CsparseMatrix>) added
594    
595    2006-10-30  Martin Maechler  <maechler@stat.math.ethz.ch>
596    
597            * tests/matprod.R: add a variation of Harri's example
598    
599            * R/dsparseMatrix.R: fix crossprod(<dsparse>, <dge>) to *not*
600            recursive infinitely.
601    
602            * R/dgCMatrix.R: + solve(<sparse>, <sparse>)
603    
604            * tests/indexing.R: add test for the "<" bug fixed 10-27 in R/dMatrix.R
605    
606    2006-10-28  Martin Maechler  <maechler@stat.math.ethz.ch>
607    
608            * tests/Class+Meth.R (tstMatrixClass): more: use non-trivial
609            matrix if possible; test m+m == 2*m; now test dgRMatrix.
610            * R/dgRMatrix.R (.to.dgR): a few more coercions, in order to
611            satisfy the above test.
612    
613    2006-10-27  Martin Maechler  <maechler@stat.math.ethz.ch>
614    
615            * R/Matrix.R (Ops):  <Matrix> o <matrix>  method added
616    
617            * R/dgCMatrix.R: solve(a, b="missing") based on
618            * src/dgCMatrix.c (dgCMatrix_matrix_solve): extend to work with
619            RHS = NULL.
620    
621            * R/diagMatrix.R (diagdiagprod): extend %*% etc to ldiMatrix;
622            add more (needed) [t]crossprod() methods.
623    
624            * man/ddiMatrix-class.Rd: more info, notably on 'diag'
625    
626            * R/Auxiliaries.R (as_CspClass): cleanup
627            (drop0): internal utility for "Csparse_drop(*, 0)"
628            (.bail.out.2): encourage active feedback
629    
630    2006-10-26  Martin Maechler  <maechler@stat.math.ethz.ch>
631    
632            * R/dMatrix.R(Compare): new(), then slots [no validity check]
633    
634            * src/Csparse.c (Csparse_validate): fixed (and more efficient in
635            non-valid or 'sorted' case).
636    
637            * R/dsparseMatrix.R: add "chol" method.
638            * R/ddenseMatrix.R: ditto
639    
640            * R/diagMatrix.R (Ops): group methods for  <diagonal> o <sparse>
641            * NAMESPACE (Ops)
642            * R/diagMatrix.R (diag2T): simple utility used "higher level"
643            coercion; deprecating direct lower level coercions.
644    
645            * R/*.R (seq): use seq_len() and seq_along() where possible.
646    
647    
648    2006-10-23  Martin Maechler  <maechler@stat.math.ethz.ch>
649    
650            * DESCRIPTION (Version): 0.9975-5 ready for release
651    
652    2006-10-20  Douglas Bates  <bates@stat.wisc.edu>
653    
654            * src/init.c (R_init_Matrix): export more cholmod CCallable functions.
655    
656    2006-10-20  Martin Maechler  <maechler@stat.math.ethz.ch>
657    
658            * R/AllClass.R (corMatrix): add 'validity' check;
659                    comment out unused "LDL" class definition
660            * NAMESPACE: mention, but do not export "LDL" class
661            * R/corMatrix.R: new (simple), needed for R-devel with
662            * tests/Class+Meth.R (tstMatrixClass): 1 exception for corMatrix
663              coerce and t() exceptions for all 5 'Mat.MatFact' classes.
664    
665    2006-10-19  Douglas Bates  <bates@stat.wisc.edu>
666    
667            * src/chm_common.h: Add R_cholmod_start to initialize cholmod to
668            use Rprintf and R's error handling.
669    
670    2006-10-17  Martin Maechler  <maechler@stat.math.ethz.ch>
671    
672            * R/diagMatrix.R (%*%): rep(*, each = .) in Matrix %*% diagonal.
673            * tests/matprod.R: add tests for the bug fixed.
674    
675  2006-10-11  Douglas Bates  <bates@stat.wisc.edu>  2006-10-11  Douglas Bates  <bates@stat.wisc.edu>
676    
677          * src/HBMM.[ch]: remove HarwellBoeing format for writing.          * src/HBMM.[ch]: remove HarwellBoeing format for writing.
# Line 5  Line 679 
679    
680  2006-10-06  Douglas Bates  <bates@stat.wisc.edu>  2006-10-06  Douglas Bates  <bates@stat.wisc.edu>
681    
682          * R/dgCMatrix.R: deprecate the writeHB function.  Use writeMM instead.          * R/d[gs]CMatrix.R: deprecate the writeHB function.  Use writeMM instead.
683    
684  2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
685    

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