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revision 1624, Wed Oct 11 15:00:11 2006 UTC revision 1724, Sat Jan 13 21:06:51 2007 UTC
# Line 1  Line 1 
1    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
4            as method for   M[ ij ] <- v
5            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
6    
7            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
8            FALSE answer
9    
10            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
11            * tests/indexing.R: test it, and some of the above
12    
13    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
14    
15            * R/Auxiliaries.R (is_duplicatedT): new utility
16    
17    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
18    
19            * src/init.c (R_init_Matrix): export cholmod_scale
20    
21    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
22    
23            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
24            base::as.matrix to (x, ...)
25    
26    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
27    
28            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
29            file; start using "Logic", hence
30    
31            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
32            * NAMESPACE: import and export "Logic"
33    
34    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
35    
36            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
37            only needed previously to R version 2.5.0.
38    
39    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
40    
41            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
42    
43            * R/Tsparse.R (replTmat): fix subassignment of triangular
44            * R/Csparse.R (replCmat): ditto
45            * tests/indexing.R: more tests, incl the above fix
46    
47    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
48    
49            * R/Auxiliaries.R (drop0): extend for non CSparse
50            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
51    
52            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
53                    use uplo correctly (!); other places: use uplo_P() macro
54    
55            * R/Csparse.R (replCmat): call diagU2N() when needed
56            * R/Tsparse.R (replTmat): ditto
57    
58            * src/dtCMatrix.c (tCMatrix_validate): new
59            * src/dtTMatrix.c (tTMatrix_validate): new, used in
60            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
61    
62            * R/diagMatrix.R (replDiag): to use in [<-
63    
64    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
65    
66            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
67                    also more general diagU2N().
68    
69    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
70    
71            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
72            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
73    
74    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
75    
76            * tests/bind.R: a few more cases
77            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
78    
79            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
80            * R/ddenseMatrix.R (cbind2/rbind2)
81            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
82            * tests/indexing.R
83            * tests/indexing.Rout.save: updated
84    
85    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
86    
87            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
88            * tests/indexing.R
89    
90    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
91    
92            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
93            align with proper position of "0", i.e., right for integers.
94            argument 'align' by default is "fancy".
95    
96    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
97    
98            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
99            * R/Csparse.R: and fix "Compare" for more cases.
100            * tests/Class+Meth.R: test some of these (m == m, m != m)
101    
102    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
103    
104            * R/lsparseMatrix.R: all() and any() methods
105            * R/ldenseMatrix.R:      ditto
106            * NAMESPACE, R/Matrix.R: ditto
107    
108            * man/all-methods.Rd: document them minimally
109    
110            * tests/simple.R: add a few examples for these
111    
112    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
113    
114            * R/Tsparse.R ([): fix long standing typo in symmetric case
115            * man/dsCMatrix-class.Rd: add example exhibiting the above case
116    
117    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
118    
119            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
120            to LL before converting to a sparse matrix. (The LDL form can be
121            converted to a sparse matrix but it is implicitly a unit
122            triangular matrix and a diagonal matrix overwritten on the diagonal.)
123    
124    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
125    
126            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
127    
128    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
129    
130            * DESCRIPTION (Version): updated -> release 0.9975-7
131            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
132    
133    2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
134    
135            * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method
136    
137    2006-11-29  Douglas Bates  <bates@stat.wisc.edu>
138    
139            * src/dgeMatrix.c (dgeMatrix_solve): Check error code from dgetri.
140            * tests/dg_Matrix.R: Add Barry Rowlingson's test of a matrix that
141            is exactly singular.
142    
143    2006-11-07  Martin Maechler  <maechler@stat.math.ethz.ch>
144    
145            * DESCRIPTION (Date): updated -> release 0.9975-6
146    
147    2006-11-06  Martin Maechler  <maechler@stat.math.ethz.ch>
148    
149            * R/Csparse.R (replCmat): symmetric indexing of symmetric matrix
150            now returns symmetric.
151    
152            * R/zzz.R ("diag<-"): replace "diag<-" in base for R <= 2.4.x
153    
154            * R/Matrix.R (.M.sub.i.2col):  new, for  M[ cbind(i,j) ] indexing.
155            * R/Matrix.R (.M.repl.i.2col): new, for  M[ cbind(i,j) ] <- value
156    
157            * R/Auxiliaries.R (.type.kind): added
158    
159    2006-11-04  Martin Maechler  <maechler@stat.math.ethz.ch>
160    
161            * src/cs.[ch]: updated to CSparse Version 2.0.3 by simply
162            running src/CSparse_install.sh
163    
164            * R/denseMatrix.R: "[": keep symmetric on symmetric indexing.
165    
166    2006-11-03  Martin Maechler  <maechler@stat.math.ethz.ch>
167    
168            * src/dsCMatrix.c (dsCMatrix_Csparse_solve): new
169            * R/dsCMatrix.R (solve): "fully-sparse" using the above.
170    
171            * R/AllClass.R: "pMatrix" now also inherits from "generalMatrix"
172    
173            * tests/Class+Meth.R (tstMatrixClass): now assure
174            the (important in method programming) property :
175    
176                    ###>>  Every "Matrix" is either
177                    ###>>  "general*", "symmetric*", "triangular*" or "diagonal*"
178    
179                    (where "*" stands for "Matrix")
180    
181            * R/Auxiliaries.R (diagU2N): now .Call()s Csparse_diagU2N for <Csparse>
182    
183            * R/dMatrix.R (Compare(<dMatrix>,<dMatrix>): update and
184            * tests/validObj.R: checks for "comparison"
185    
186            * R/sparseMatrix.R ([): improved indexing for sparse;
187                    trying to keep <symmetric>[ n, n] symmmetric
188    
189            * tests/indexing.R: indexing for logical sparse now ok
190    
191    
192    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
193    
194            * src/Tsparse.c: use xTsparse_validate() , and hence remove
195    
196            * src/{ltC,lsC,lgT}Matrix.[ch]: removed
197    
198    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
199    
200            * R/AllClass.R (Matrix-class): check length of dimnames in validity.
201    
202            * tests/simple.R: validObject() checking the above.
203    
204            * src/dgCMatrix.c (xCMatrix_validate): new, small and simple,
205            replacing both dgCMatrix_validate and lgCM*.
206    
207            * src/Csparse.c (Csparse_dense_prod, etc): do not lose dimnames;
208            fix dimnames setting in other places.
209            * src/chm_common.c (chm_dense_to_SEXP): now can pass dimnames
210    
211    2006-11-01  Martin Maechler  <maechler@stat.math.ethz.ch>
212    
213            * R/Csparse.R,src/Csparse.c, etc: tcrossprod(<CsparseM>,<CsparseM>)
214    
215            * R/sparseMatrix.R (isSymmetric): drop 'factors' slot for
216            symmetry test, via
217            * R/Auxiliaries.R (.as.dgC.0.factors):
218    
219    2006-11-01  Douglas Bates  <bates@r-project.org>
220    
221            * R/Csparse.R,src/Csparse.c,tests/matprod.R,
222            man/CsparseMatrix-class.Rd: crossprod(<CsparseMatrix>,
223            <CsparseMatrix>) added
224    
225    2006-10-30  Martin Maechler  <maechler@stat.math.ethz.ch>
226    
227            * tests/matprod.R: add a variation of Harri's example
228    
229            * R/dsparseMatrix.R: fix crossprod(<dsparse>, <dge>) to *not*
230            recursive infinitely.
231    
232            * R/dgCMatrix.R: + solve(<sparse>, <sparse>)
233    
234            * tests/indexing.R: add test for the "<" bug fixed 10-27 in R/dMatrix.R
235    
236    2006-10-28  Martin Maechler  <maechler@stat.math.ethz.ch>
237    
238            * tests/Class+Meth.R (tstMatrixClass): more: use non-trivial
239            matrix if possible; test m+m == 2*m; now test dgRMatrix.
240            * R/dgRMatrix.R (.to.dgR): a few more coercions, in order to
241            satisfy the above test.
242    
243    2006-10-27  Martin Maechler  <maechler@stat.math.ethz.ch>
244    
245            * R/Matrix.R (Ops):  <Matrix> o <matrix>  method added
246    
247            * R/dgCMatrix.R: solve(a, b="missing") based on
248            * src/dgCMatrix.c (dgCMatrix_matrix_solve): extend to work with
249            RHS = NULL.
250    
251            * R/diagMatrix.R (diagdiagprod): extend %*% etc to ldiMatrix;
252            add more (needed) [t]crossprod() methods.
253    
254            * man/ddiMatrix-class.Rd: more info, notably on 'diag'
255    
256            * R/Auxiliaries.R (as_CspClass): cleanup
257            (drop0): internal utility for "Csparse_drop(*, 0)"
258            (.bail.out.2): encourage active feedback
259    
260    2006-10-26  Martin Maechler  <maechler@stat.math.ethz.ch>
261    
262            * R/dMatrix.R(Compare): new(), then slots [no validity check]
263    
264            * src/Csparse.c (Csparse_validate): fixed (and more efficient in
265            non-valid or 'sorted' case).
266    
267            * R/dsparseMatrix.R: add "chol" method.
268            * R/ddenseMatrix.R: ditto
269    
270            * R/diagMatrix.R (Ops): group methods for  <diagonal> o <sparse>
271            * NAMESPACE (Ops)
272            * R/diagMatrix.R (diag2T): simple utility used "higher level"
273            coercion; deprecating direct lower level coercions.
274    
275            * R/*.R (seq): use seq_len() and seq_along() where possible.
276    
277    
278    2006-10-23  Martin Maechler  <maechler@stat.math.ethz.ch>
279    
280            * DESCRIPTION (Version): 0.9975-5 ready for release
281    
282    2006-10-20  Douglas Bates  <bates@stat.wisc.edu>
283    
284            * src/init.c (R_init_Matrix): export more cholmod CCallable functions.
285    
286    2006-10-20  Martin Maechler  <maechler@stat.math.ethz.ch>
287    
288            * R/AllClass.R (corMatrix): add 'validity' check;
289                    comment out unused "LDL" class definition
290            * NAMESPACE: mention, but do not export "LDL" class
291            * R/corMatrix.R: new (simple), needed for R-devel with
292            * tests/Class+Meth.R (tstMatrixClass): 1 exception for corMatrix
293              coerce and t() exceptions for all 5 'Mat.MatFact' classes.
294    
295    2006-10-19  Douglas Bates  <bates@stat.wisc.edu>
296    
297            * src/chm_common.h: Add R_cholmod_start to initialize cholmod to
298            use Rprintf and R's error handling.
299    
300    2006-10-17  Martin Maechler  <maechler@stat.math.ethz.ch>
301    
302            * R/diagMatrix.R (%*%): rep(*, each = .) in Matrix %*% diagonal.
303            * tests/matprod.R: add tests for the bug fixed.
304    
305  2006-10-11  Douglas Bates  <bates@stat.wisc.edu>  2006-10-11  Douglas Bates  <bates@stat.wisc.edu>
306    
307          * src/HBMM.[ch]: remove HarwellBoeing format for writing.          * src/HBMM.[ch]: remove HarwellBoeing format for writing.
# Line 5  Line 309 
309    
310  2006-10-06  Douglas Bates  <bates@stat.wisc.edu>  2006-10-06  Douglas Bates  <bates@stat.wisc.edu>
311    
312          * R/dgCMatrix.R: deprecate the writeHB function.  Use writeMM instead.          * R/d[gs]CMatrix.R: deprecate the writeHB function.  Use writeMM instead.
313    
314  2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
315    

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