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revision 1682, Fri Dec 1 18:42:40 2006 UTC revision 1825, Thu Apr 12 13:21:51 2007 UTC
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1    2007-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/dgTMatrix.R (mat2dgT): care about NAs
4    
5    2007-04-11  Martin Maechler  <maechler@stat.math.ethz.ch>
6    
7            * R/kronecker.R: triangularity preserving methods
8    
9    2007-03-27  Martin Maechler  <maechler@stat.math.ethz.ch>
10    
11            * R/kronecker.R: new file collecting kronecker() methods in one
12                    place.  Goal: become much faster!
13    
14    2007-03-23  Martin Maechler  <maechler@stat.math.ethz.ch>
15    
16            * src/dtCMatrix.c (dtCMatrix_solve): use the new code from Kasper
17            Kristensen based cs_spsolve() instead of _lsolve & _usolve which
18            can be much faster.
19    
20            * tests/matprod.R: add regression tests for these (upper & lower).
21    
22    2007-03-19  Martin Maechler  <maechler@stat.math.ethz.ch>
23    
24            * R/Matrix.R (diff): method for our Matrices.
25    
26            * R/sparseMatrix.R (isDiagonal): check dim()!
27    
28    2007-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
29    
30            * R/Matrix.R (dim<-): new method for "reshape()" built on a
31            proposal from Tamas Papp.
32    
33    2007-03-16  Martin Maechler  <maechler@stat.math.ethz.ch>
34    
35            * R/AllGeneric.R: remove all  if(!isGeneric(.))  clauses
36    
37            * R/zzz.R (.onLoad, .onUnload): do *not* leave bind_activation(TRUE);
38            rather define and export  cBind() and rBind() only.
39            --> useRs *must* change code that used to have cbind()/rbind() !!
40    
41            * R/bind.R: change tests from cbind() to cBind() and similarly to rBind()
42            * R/bind.Rout.save: ditto
43    
44    2007-02-16  Douglas Bates  <bates@r-project.org>
45    
46            * DESCRIPTION (Date, Version): 0.9975-11 with new date
47            * src/dgCMatrix.c (R_to_CMatrix, compressed_to_TMatrix): remove
48            const modifier on declaration of the array 'valid'
49    
50    2007-02-12  Douglas Bates  <bates@stat.wisc.edu>
51    
52            * R/CHMfactor.R: Add image method (coercion to sparseMatrix).
53    
54    2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>
55    
56            * DESCRIPTION (Date, Version): 0.9975-10 with new date.
57    
58            * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix
59            * tests/simple.R: test the above and some of these coercions:
60    
61            * R/nsparseMatrix.R: coercing "Csparse" to "lsparseMatrix";
62                    be careful to avoid infinite recursion, using new coercions in
63            * R/ngCMatrix.R and nsC... and ntC...
64            * R/lsparseMatrix.R: ditto
65    
66            * R/SparseM-conv.R: more conversion, notably for triplet matrices.
67    
68            * src/dgCMatrix.c (R_to_C_Matrix): port Doug's fix and
69            * R/Rsparse.R: reactivate .Call()s
70    
71            * tests/Class+Meth.R: a bit more on actual classes
72    
73    2007-02-04  Douglas Bates  <bates@stat.wisc.edu>
74    
75            * src/dgCMatrix.c (compressed_to_TMatrix): fix memory bug using strdup()
76    
77    2007-02-03  Martin Maechler  <maechler@stat.math.ethz.ch>
78    
79            * DESCRIPTION (Version): 0.9975-10 to upload
80    
81            * tests/Class+Meth.R (tstMatrixClass): require coercions to
82            specific classes less unconditionally.
83    
84            * R/Auxiliaries.R: get rid of as_Tsparse() and as_Rsparse()
85    
86            * R/Tsparse.R (triu): etc, use as(*, "TsparseMatrix") instead of as_Tsparse()
87    
88            * R/Rsparse.R (.R.2.T): R-level workaround using compressed_to_TMatrix.
89            * R/Rsparse.R (.R.2.C): R-level workaround since C-level
90            R_to_CMatrix segfaults on one platform.
91            Eliminate most coercion method to *specific* classes, and replace
92            with virtual classes coercions.
93    
94    
95    2007-02-01  Martin Maechler <maechler@stat.math.ethz.ch>
96    
97            * src/init.c: export the CHM...._validate() placeholders, since
98            they *are* called.
99    
100            * tests/Class+Meth.R (classCanCoerce): and starting to test
101            all as(<from>, <to>)
102    
103    2007-01-30  Martin Maechler  <maechler@stat.math.ethz.ch>
104    
105            * R/Tsparse.R ([): more care when subsetting triangular Tsparse
106            * tests/indexing.R: tested now
107            * tests/indexing.Rout.save: updated
108    
109            * src/Csparse.c (Csparse_to_dense): use Rkind = -1 for PATTERN to
110            * src/chm_common.c (chm_dense_to_SEXP): return "ngeMatrix" when
111            appropriate.
112    
113            * NAMESPACE: export a trivial
114            * R/Matrix.R: drop() Matrix-method
115    
116            * R/AllClass.R: moved all prototypes to virtual super classes.
117    
118            * R/Rsparse.R: many more coercions to have less exceptions in
119            * tests/Class+Meth.R:
120    
121            * R/Ops.R (Compare): tweak for case with NA
122            * tests/simpl.R: hence another 'FIXME' eliminated
123    
124    2007-01-29  Martin Maechler  <maechler@stat.math.ethz.ch>
125    
126            * R/diagMatrix.R (solve): the obvious methods for diagonalMatrix
127            objects.
128    
129            * tests/Class+Meth.R (tstMatrixClass): now testing diag(), nnzero(),
130              and more of "!", "&", "|", all, any; coercions
131    
132            * R/Rsparse.R: many coercions (which enable quite a few other
133            methods), thanks to enhancements in
134            * src/dgCMatrix.c (R_to_CMatrix): new, and
135            * src/dgCMatrix.c (compressed_to_TMatrix): now for (d,l,n) ,
136            symmetric & triangular and ..RMatrix objects.
137    
138            * src/TMatrix_as.c (Matrix_T_as_DENSE,Matrix_T_as_GENERAL):
139            renamed file from src/dsTMatrix.c;
140            now dealing with symmetric and triangular Tsparse coercions, both
141            to dense and general.
142    
143    2007-01-27  Martin Maechler  <maechler@stat.math.ethz.ch>
144    
145            * src/dsTMatrix.c: has now "l" and "n" methods besides the "d" ones.
146    
147            * R/Ops.R (Arith): <dgCMatrix> o <numeric> now remains sparse
148            where sensible when the <numeric> is of length > 1.
149    
150    2007-01-26  Martin Maechler  <maechler@stat.math.ethz.ch>
151    
152            * R/Matrix.R ([<-): for M[] <- value: fix length
153    
154    2007-01-25  Martin Maechler  <maechler@stat.math.ethz.ch>
155    
156            * R/Auxiliaries.R (n2l_Matrix): new, to be used in
157            * R/ndenseMatrix.R: new coercions n* -> l*
158    
159    2007-01-22  Martin Maechler  <maechler@stat.math.ethz.ch>
160    
161            * R/triangularMatrix.R: new file; simple triu() and tril() methods.
162    
163            * R/Ops.R ("Logic"): and other "Ops", many updates
164    
165    2007-01-18  Martin Maechler  <maechler@stat.math.ethz.ch>
166    
167            * src/Mutils.h (SET_DimNames): new utility
168    
169            * R/Auxiliaries.R (nnzero): improved and now exported via
170    
171            * NAMESPACE: + nnzero(); length() == prod(dim(.)) method for all "Matrix" objects
172    
173    2007-01-17  Martin Maechler  <maechler@stat.math.ethz.ch>
174    
175            * R/diagMatrix.R (!): fix typo.
176    
177    2007-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
178    
179            * R/Auxiliaries.R (as_Csparse): and quite a few others:
180                    allow to pass class definition --> speedup
181            * R/sparseMatrix.R: apply the above
182    
183            * R/Csparse.R: coercion Csparse* to dense* now preserves shape properties.
184    
185            * src/Mutils.h (mMatrix_as_geMatrix): new, based on
186            * src/Mutils.c (dup_mMatrix_as_geMatrix): new; generalization of
187            old dup_mMatrix_as_dgeMatrix), eliminating a long-standing "FIXME".
188    
189            * src/dense.c (dense_to_Csparse): use new mMatrix_as_geMatrix()
190    
191            * R/denseMatrix.R (.dense2C): based on dense_to_Csparse: name it,
192            and use it for "sparse*" as well, since it's faster than the
193            as_Csparse(.) way.
194    
195    2007-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
196    
197            * R/Ops.R ("Logic"): more methods, notably an  <lgC> o <lgC> one.
198    
199    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
200    
201            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
202            as method for   M[ ij ] <- v
203            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
204    
205            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
206            FALSE answer
207    
208            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
209            * tests/indexing.R: test it, and some of the above
210    
211    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
212    
213            * R/Auxiliaries.R (is_duplicatedT): new utility
214    
215    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
216    
217            * src/init.c (R_init_Matrix): export cholmod_scale
218    
219    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
220    
221            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
222            base::as.matrix to (x, ...)
223    
224    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
225    
226            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
227            file; start using "Logic", hence
228    
229            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
230            * NAMESPACE: import and export "Logic"
231    
232    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
233    
234            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
235            only needed previously to R version 2.5.0.
236    
237    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
238    
239            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
240    
241            * R/Tsparse.R (replTmat): fix subassignment of triangular
242            * R/Csparse.R (replCmat): ditto
243            * tests/indexing.R: more tests, incl the above fix
244    
245    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
246    
247            * R/Auxiliaries.R (drop0): extend for non CSparse
248            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
249    
250            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
251                    use uplo correctly (!); other places: use uplo_P() macro
252    
253            * R/Csparse.R (replCmat): call diagU2N() when needed
254            * R/Tsparse.R (replTmat): ditto
255    
256            * src/dtCMatrix.c (tCMatrix_validate): new
257            * src/dtTMatrix.c (tTMatrix_validate): new, used in
258            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
259    
260            * R/diagMatrix.R (replDiag): to use in [<-
261    
262    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
263    
264            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
265                    also more general diagU2N().
266    
267    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
268    
269            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
270            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
271    
272    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
273    
274            * tests/bind.R: a few more cases
275            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
276    
277            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
278            * R/ddenseMatrix.R (cbind2/rbind2)
279            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
280            * tests/indexing.R
281            * tests/indexing.Rout.save: updated
282    
283    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
284    
285            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
286            * tests/indexing.R
287    
288    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
289    
290            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
291            align with proper position of "0", i.e., right for integers.
292            argument 'align' by default is "fancy".
293    
294    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
295    
296            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
297            * R/Csparse.R: and fix "Compare" for more cases.
298            * tests/Class+Meth.R: test some of these (m == m, m != m)
299    
300    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
301    
302            * R/lsparseMatrix.R: all() and any() methods
303            * R/ldenseMatrix.R:      ditto
304            * NAMESPACE, R/Matrix.R: ditto
305    
306            * man/all-methods.Rd: document them minimally
307    
308            * tests/simple.R: add a few examples for these
309    
310    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
311    
312            * R/Tsparse.R ([): fix long standing typo in symmetric case
313            * man/dsCMatrix-class.Rd: add example exhibiting the above case
314    
315    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
316    
317            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
318            to LL before converting to a sparse matrix. (The LDL form can be
319            converted to a sparse matrix but it is implicitly a unit
320            triangular matrix and a diagonal matrix overwritten on the diagonal.)
321    
322    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
323    
324            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
325    
326    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
327    
328            * DESCRIPTION (Version): updated -> release 0.9975-7
329            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
330    
331  2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
332    
333          * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method          * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method

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