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revision 1767, Mon Feb 5 16:53:17 2007 UTC revision 1947, Thu Jul 5 08:22:00 2007 UTC
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1    2007-07-05  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/sparseMatrix.R (printSpMatrix): renamed from prSpMatrix()
4            and extended with more sophisticated 'col.names' option.
5            * NAMESPACE: export  printSparseMatrix()
6            * man/printSpMatrix.Rd: document, incl. examples
7    
8    2007-07-04  Martin Maechler  <maechler@stat.math.ethz.ch>
9    
10            * DESCRIPTION (Version): 0.99875-4
11    
12            * tests/Class+Meth.R (tstMatrixClass): add dimnames, and hence test
13            some dimnames perservation.
14    
15            * R/dsTMatrix.R (t-method): keep dimnames
16            * R/dtTMatrix.R:  ditto
17    
18            * R/sparseMatrix.R (prSpMatrix): print colnames when non-trivial
19            and ncol(.) < 10
20    
21            * src/cs_utils.c: drop check_class() and use Matrix_check_class()
22            from Mutils.h
23    
24            * src/lgCMatrix.c ([ln]csc_to_matrix): no longer lose dimnames,
25            e.g. in as(<ngCMatrix>, "matrix")
26    
27    2007-06-29  Martin Maechler  <maechler@stat.math.ethz.ch>
28    
29            * DESCRIPTION (Version): 0.99875-3 ready to be released.
30    
31            * R/sparseMatrix.R (spMatrix): make spMatrix(3,4) working
32    
33            * R/AllGeneric.R: set "Math" (and "Math2") group generics in a way
34            that should also work in a future version of R.
35    
36    2007-06-21  Martin Maechler  <maechler@stat.math.ethz.ch>
37    
38            * NAMESPACE, R/AllClass.R: "xsparseVector" class union.
39    
40            * R/sparseVector.R: more *sparseVector coercions, notably for
41            non - double ones.
42    
43    2007-06-19  Martin Maechler  <maechler@stat.math.ethz.ch>
44    
45            * R/colSums.R: new file for all (col|row)(Sums|Means) methods,
46              notably the new ones building on the new .Call(.)s:
47    
48            * src/dgCMatrix.c (DEF_gCMatrix_COLSUMS): use to define
49            all 4 of [dlin]gCMatrix_colSums().
50    
51    2007-06-18 16:12  Douglas Bates <bates@stat.wisc.edu>
52    
53            * [r4472] src/Syms.h, src/init.c: Added Matrix_lengthSym
54            * [r4473] src/dgCMatrix.c: Modified dgCMatrix_colSums for sparseVector
55              result
56    
57    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
58    
59            * R/kronecker.R: fix typo (could lead to inf.recursion)
60            * test/simple.R: testing that
61    
62            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
63            method as well (which can have arguments, show() can't).
64    
65    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
66    
67            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
68              added dgCMatrix_colSums for [col,row][Sums,Means]
69    
70    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
71    
72            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
73              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
74              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
75            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
76              class
77            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
78              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
79              row names to store the levels - duh!  Added an example.
80    
81    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
82    
83            * src/Csparse.c (Csparse_validate): check for *repeated* entries
84            thanks to example from Christian Buchta; with a test here:
85            * tests/simple.R:
86    
87    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
88    
89            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
90            of colSums(*, sparseResult = TRUE)
91    
92    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
93    
94            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
95            'na.rm = FALSE' as "everywhere" else in R.
96    
97    2007-06-05 Douglas Bates <bates@stat.wisc.edu>
98    
99            * [r4421] src/CSparse_install.sh: Modify for new organization of
100              CSparse package
101            * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
102              SuiteSparse
103            * [r4426] src/Makefile: add ./UFconfig to the include path for
104              compilation
105            * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
106            * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
107              src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
108    
109    2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
110    
111            * R/Auxiliaries.R (emptyColnames): + argument msg.if.not.empty, used in
112            * R/sparseMatrix.R (prSpMatrix): now gives a message about
113            suppressed column names.
114    
115    2007-06-04 17:13  Douglas Bates <bates@stat.wisc.edu>
116    
117            * [r4418] src/Csparse.c, src/HBMM.c, src/Mutils.c, src/Mutils.h,
118              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dgCMatrix.c,
119              src/dgeMatrix.c, src/dpoMatrix.c, src/dpoMatrix.h, src/dppMatrix.c,
120              src/dppMatrix.h, src/dsCMatrix.c, src/dspMatrix.c, src/dspMatrix.h,
121              src/dsyMatrix.c, src/dsyMatrix.h, src/dtpMatrix.c, src/dtrMatrix.c:
122              Remove warnings after change to const char* CHAR
123    
124    2007-06-04 17:11  Douglas Bates <bates@stat.wisc.edu>
125    
126            * [r4417] inst/include/Matrix_stubs.c, inst/include/cholmod.h: Corrected
127              type of M_cholmod_ssmult
128    
129    2007-06-03 14:42  Douglas Bates <bates@stat.wisc.edu>
130    
131            * [r4412] inst/include/Matrix_stubs.c, inst/include/cholmod.h,
132              src/init.c: Yet another cholmod export - cholmod_ssmult
133    
134    2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>
135    
136            * NAMESPACE: exported drop0(), since
137            * man/drop0.Rd: I have seen several cases, I really wanted to use
138            it, so our users may want too.
139    
140    2007-05-22  Martin Maechler  <maechler@stat.math.ethz.ch>
141    
142            * man/colSums.Rd: separately document colSums() etc, since these
143            have the extra argument 'sparseResult'.
144    
145    2007-05-21  Martin Maechler  <maechler@stat.math.ethz.ch>
146    
147            * R/sparseMatrix.R (spMatrix): utility (T)sparse Matrix constructor;
148            * man/spMatrix.Rd: docu., including examples
149    
150            * R/Auxiliaries.R (sp.colMeans): etc, using a patched callGeneric(),
151            in order to make colMeans() etc fast *and* correct.
152            * R/sparseVector.R (replSPvec): "[<-" functionality for
153            sparseVectors; tested in
154            * tests/simple.R:
155    
156    2007-05-19  Martin Maechler  <maechler@stat.math.ethz.ch>
157    
158            * R/sparseMatrix.R (print.sparseSummary): and summary() method for
159            (very) sparse Matrices; output similar to Matlab's print().
160    
161    2007-05-17  Douglas Bates  <bates@stat.wisc.edu>
162    
163            * src/HBMM.c (Matrix_writeMatrixMarket): Write 1-based, not
164            0-based, indices (Jose Quesada <quesada@gmail.com>).
165    
166    2007-05-16  Douglas Bates  <bates@stat.wisc.edu>
167    
168            * R/CHMfactor.R: Added solve methods for a CHMfactor object.
169    
170    2007-05-16  Martin Maechler  <maechler@stat.math.ethz.ch>
171    
172            * R/Auxiliaries.R (sparsapply): new utility, much faster than
173            tapply1() for large sparse matrices.
174    
175    2007-05-15  Martin Maechler  <maechler@stat.math.ethz.ch>
176    
177            * R/Matrix.R (dim<-): reshape now via sparseVector.
178    
179            * R/sparseVector.R: methods and function for
180            * R/AllClass.R: new "sparseVector" class and daughters.
181            * NAMESPACE: export new classes
182    
183    2007-05-14  Martin Maechler  <maechler@stat.math.ethz.ch>
184    
185            * DESCRIPTION (Version): 0.99875-1
186            * src/Makefile.win: also remove Lapack code from here (cf. 04-25).
187    
188    2007-05-11  Martin Maechler  <maechler@stat.math.ethz.ch>
189    
190            * R/Tsparse.R ([, Tsparse): fix last case: *duplicated*, symmetric
191            indexing
192            * tests/indexing.R: test set for that.
193    
194    2007-05-08  Martin Maechler  <maechler@stat.math.ethz.ch>
195    
196            * R/Tsparse.R (replTmat): fix the case of *duplicated* index
197            entries.
198            * tests/indexing.R(out): add regression test for it
199    
200    2007-04-30  Martin Maechler  <maechler@stat.math.ethz.ch>
201    
202            * R/(l(dense|sparse))?Matrix.R (!): use 'x', not 'e1' as argument
203            name for "!" method definitions.
204    
205    2007-04-26  Martin Maechler  <maechler@stat.math.ethz.ch>
206    
207            * R/Tsparse.R (intI): new utility, used for "[" :
208                    Cleanup up there, and fixes for duplicated indices - more TODO!
209    
210            * tests/indexing.R(out): more tests
211    
212    2007-04-25  Douglas Bates  <bates@stat.wisc.edu>
213    
214            * DESCRIPTION,src/Makefile: require R>= 2.5.0 and remove Lapack
215            code that is now part of the R Lapack library.
216    
217            * src/init.c,inst/include/{Matrix_stubs.c,cholmod.h}:export
218            cholmod_factorize_p (used in lme4 for GLMMs and NLMMs).
219    
220    2007-04-21  Martin Maechler  <maechler@stat.math.ethz.ch>
221    
222            * R/Matrix.R (image): method for all Matrices, not just sparse ones.
223    
224    2007-04-17  Martin Maechler  <maechler@stat.math.ethz.ch>
225    
226            * R/Auxiliaries.R (tapply1): unname(.) -> colSums() etc don't end
227            up with extraneous names '0'...'<n-1>'
228    
229    2007-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
230    
231            * R/dgTMatrix.R (mat2dgT): care about NAs
232    
233    2007-04-11  Martin Maechler  <maechler@stat.math.ethz.ch>
234    
235            * R/kronecker.R: triangularity preserving methods
236    
237    2007-03-27  Martin Maechler  <maechler@stat.math.ethz.ch>
238    
239            * R/kronecker.R: new file collecting kronecker() methods in one
240                    place.  Goal: become much faster!
241    
242    2007-03-23  Martin Maechler  <maechler@stat.math.ethz.ch>
243    
244            * src/dtCMatrix.c (dtCMatrix_solve): use the new code from Kasper
245            Kristensen based cs_spsolve() instead of _lsolve & _usolve which
246            can be much faster.
247    
248            * tests/matprod.R: add regression tests for these (upper & lower).
249    
250    2007-03-19  Martin Maechler  <maechler@stat.math.ethz.ch>
251    
252            * R/Matrix.R (diff): method for our Matrices.
253    
254            * R/sparseMatrix.R (isDiagonal): check dim()!
255    
256    2007-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
257    
258            * R/Matrix.R (dim<-): new method for "reshape()" built on a
259            proposal from Tamas Papp.
260    
261    2007-03-16  Martin Maechler  <maechler@stat.math.ethz.ch>
262    
263            * R/AllGeneric.R: remove all  if(!isGeneric(.))  clauses
264    
265            * R/zzz.R (.onLoad, .onUnload): do *not* leave bind_activation(TRUE);
266            rather define and export  cBind() and rBind() only.
267            --> useRs *must* change code that used to have cbind()/rbind() !!
268    
269            * R/bind.R: change tests from cbind() to cBind() and similarly to rBind()
270            * R/bind.Rout.save: ditto
271    
272    2007-02-16  Douglas Bates  <bates@r-project.org>
273    
274            * DESCRIPTION (Date, Version): 0.9975-11 with new date
275            * src/dgCMatrix.c (R_to_CMatrix, compressed_to_TMatrix): remove
276            const modifier on declaration of the array 'valid'
277    
278    2007-02-12  Douglas Bates  <bates@stat.wisc.edu>
279    
280            * R/CHMfactor.R: Add image method (coercion to sparseMatrix).
281    
282  2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>  2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>
283    
284            * DESCRIPTION (Date, Version): 0.9975-10 with new date.
285    
286          * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix          * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix
287          * tests/simple.R: test the above and some of these coercions:          * tests/simple.R: test the above and some of these coercions:
288    

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