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revision 1877, Tue Jun 5 17:06:34 2007 UTC revision 2036, Mon Aug 6 12:03:47 2007 UTC
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1    2007-08-03  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/Matrix.R (%*%, crossprod, tcrossprod): add method for
4                    ("Matrix", "matrix") whish is needed in some cases.
5    
6            * src/dsyMatrix.c (dsyMatrix_matrix_mm): get @Dim of 'val', not
7            'b' which differs for 'matrix'
8    
9            * R/colSums.R (.as.dge.Fun): need ddenseMatrix methods to avoid
10            infinite recursion in dispatch for some cases.
11    
12            * tests/matprod.R: test all of the above
13    
14    
15    2007-08-02  Martin Maechler  <maechler@stat.math.ethz.ch>
16    
17            * DESCRIPTION (Date): set ready for release -- 0.999375-1
18    
19    2007-08-01 15:44  Douglas Bates <bates@stat.wisc.edu>
20    
21            * [r4686] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
22              src/chm_common.c, src/chm_common.h: Change API for
23              numeric_as_chm_dense and N_AS_CHM_DN
24    
25    2007-08-01  Martin Maechler  <maechler@stat.math.ethz.ch>
26    
27            * src/dtrMatrix.c (dtrMatrix_matrix_mm): fix dimensionality check (!)
28            * tests/matprod.R: regr.test for it
29    
30    2007-07-20  Martin Maechler  <maechler@stat.math.ethz.ch>
31    
32            * R/dMatrix.R: fix from Brian for   Math2(., digits = "missing")
33            * tests/group-methods.R: and regression-test it
34    
35    2007-07-19 19:45  Douglas Bates <bates@stat.wisc.edu>
36    
37            * [r4642] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
38              inst/include/cholmod.h, src/chm_common.c, src/init.c: Export
39              triplet_to_sparse, documentation, use typedefs
40    
41    2007-07-18  Martin Maechler  <maechler@stat.math.ethz.ch>
42    
43            * man/dpoMatrix-class.Rd: added 'corMatrix' example
44    
45            * src/dsyMatrix.[ch] (dsyMatrix_as_matrix): new 'keep_dimnames' arg
46            * src/dtrMatrix.[ch] (dtrMatrix_as_matrix): ditto
47            * src/init.c, R/dsyMatrix.R, R/dtrMatrix.R, R/lgTMatrix.R: ditto
48    
49            * R/lsparseMatrix.R: bug fix in "all" method
50            * R/Ops.R (.do.Logic.lsparse): "|" bug in borderline case
51    
52            * R/dsyMatrix.R (coerce->dsTMatrix): (i,j) slots should *not* have names
53            * R/ngTMatrix.R (coerce->ngTMatrix): ditto;
54                    + matrix |-> nMatrix coercion
55            * R/pMatrix.R: + setAs()  to dMatrix and from nMatrix
56            * man/pMatrix-class.Rd: ditto
57    
58            * R/Matrix.R (Summary): method for non-dMatrix
59    
60            * tests/Class+Meth.R (extraValid): new check about "dirty" slots
61            * tests/Class+Meth.R (tstMatrixClass): test norm(.);
62                    test all Summary methods.
63    
64    2007-07-16  Martin Maechler  <maechler@stat.math.ethz.ch>
65    
66            * R/dgeMatrix.R (norm, rcond): methods for 'matrix'
67    
68    2007-07-14  Martin Maechler  <maechler@stat.math.ethz.ch>
69    
70            * R/sparseMatrix.R (norm): simple methods for sparseMatrix
71    
72            * R/pMatrix.R (t?crossprod): methods for pMatrix
73    
74    2007-07-10  Douglas Bates  <bates@stat.wisc.edu>
75    
76            * src/dgeMatrix.c (dgeMatrix_colsums): Get the logic straight.
77    
78    2007-07-09 20:45  Douglas Bates <bates@stat.wisc.edu>
79    
80            * [r4579] src/dgeMatrix.c: Untangle horrible code in dgeMatrix_colsums
81              trying to fix a subtle bug - which has been somewhere else.
82    
83    2007-07-09 19:43  Martin Maechler <maechler@stat.math.ethz.ch>
84    
85            * [r4578] src/dgeMatrix.c: "cleaned" dgeMatrix_colsums() - but did not
86              solve the bug
87    
88    2007-07-08  Martin Maechler  <maechler@stat.math.ethz.ch>
89    
90            * src/dgCMatrix.c (compressed_to_TMatrix):
91    
92    2007-07-07  Martin Maechler  <maechler@stat.math.ethz.ch>
93    
94            * src/Csparse.c (Rsparse_validate): new, to have some validity
95            checking for RsparseMatrix
96            * src/dgCMatrix.c (xRMatrix_validate): ditto
97            * src/dtCMatrix.c (tRMatrix_validate): ditto
98    
99    2007-07-07  Douglas Bates <bates@stat.wisc.edu>
100    
101            * [r4567] R/AllClass.R: Slots already in RsparseMatrix were redefined in
102              lgRMatrix
103            * [r4568] DESCRIPTION: Prepare for bug-fix release
104            * [r4570] src/CHOLMOD/Check/cholmod_write.c: Include cholmod_matrixops.h
105              for declaration of cholmod_symmetry
106    
107    2007-07-06  Martin Maechler  <maechler@stat.math.ethz.ch>
108    
109            * DESCRIPTION (Version): 0.999375 merged into the trunk; ready for
110            release.
111    
112    2007-07-06 14:11  Douglas Bates <bates@stat.wisc.edu>
113    
114            * [r4559] src/iohb.c, src/iohb.h: Remove Harwell-Boeing input/output
115              functions - no longer used
116            * [r4560] src/HBMM.c, src/Mutils.c, src/dgTMatrix.c, src/dgeMatrix.c,
117              src/dspMatrix.c, src/dsyMatrix.c, src/dtCMatrix.c,
118              src/factorizations.c, src/sparseQR.c: Replace most calls to Calloc by
119              Alloca
120    
121    2007-07-06 13:14  Martin Maechler <maechler@stat.math.ethz.ch>
122    
123            * [r4558] inst/doc/Comparisons.Rnw, src/CHMfactor.c, src/Csparse.c,
124              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dense.c,
125              src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c, src/sparseQR.c,
126              src/t_gCMatrix_colSums.c: more R_CheckStack()s
127    
128    2007-07-05 18:12  Douglas Bates <bates@stat.wisc.edu>
129    
130            * [r4550] inst/include/Matrix.h: Add the macro N_AS_CHM_DN to "alloca"
131              the required amount of memory then call M_numeric_as_chm_dense.
132            * [r4556] src/Mutils.h, src/dgCMatrix.c: Define and use the Alloca macro
133              (like Calloc but calling alloca)
134    
135    2007-07-05  Martin Maechler  <maechler@stat.math.ethz.ch>
136    
137            * R/sparseMatrix.R (printSpMatrix): renamed from prSpMatrix()
138            and extended with more sophisticated 'col.names' option.
139            * NAMESPACE: export  printSparseMatrix()
140            * man/printSpMatrix.Rd: document, incl. examples
141    
142    2007-07-04 16:21  Douglas Bates <bates@stat.wisc.edu>
143    
144            * [r4543] src/cs_utils.c, src/cs_utils.h, src/dgCMatrix.c,
145              src/dtCMatrix.c, src/sparseQR.c: CSP typedef for *cs and macro
146              AS_CSP. API change - pass the empty structure to Matrix_as_cs.
147    
148    2007-07-04  Martin Maechler  <maechler@stat.math.ethz.ch>
149    
150            * DESCRIPTION (Version): 0.99875-4
151    
152            * tests/Class+Meth.R (tstMatrixClass): add dimnames, and hence test
153            some dimnames perservation.
154    
155            * R/dsTMatrix.R (t-method): keep dimnames
156            * R/dtTMatrix.R:  ditto
157    
158            * R/sparseMatrix.R (prSpMatrix): print colnames when non-trivial
159            and ncol(.) < 10
160    
161            * src/cs_utils.c: drop check_class() and use Matrix_check_class()
162            from Mutils.h
163    
164            * src/lgCMatrix.c ([ln]csc_to_matrix): no longer lose dimnames,
165            e.g. in as(<ngCMatrix>, "matrix")
166    
167    2007-07-01 13:27  Douglas Bates <bates@stat.wisc.edu>
168    
169            * [r4529] .: Create a branch for the API changes from the 0.99875
170              series to the 0.999375 series
171            * [r4530] DESCRIPTION, inst/include/Matrix.h,
172              inst/include/Matrix_stubs.c, src/CHMfactor.c, src/Csparse.c,
173              src/Mutils.h, src/Tsparse.c, src/chm_common.c, src/chm_common.h,
174              src/dense.c, src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c,
175              src/t_gCMatrix_colSums.c: API change - pass the empty structure to the
176              as_cholmod_x functions
177    
178    2007-06-30 09:05  Martin Maechler <maechler@stat.math.ethz.ch>
179    
180            * [r4527] trunk/Matrix/DESCRIPTION, trunk/Matrix/NAMESPACE,
181              trunk/Matrix/inst/doc/Comparisons.Rnw: add session- and hardware-info
182              to Comparisons
183    
184    >>>>>>> .merge-right.r4561
185    2007-06-29  Martin Maechler  <maechler@stat.math.ethz.ch>
186    
187            * DESCRIPTION (Version): 0.99875-3 ready to be released.
188    
189            * R/sparseMatrix.R (spMatrix): make spMatrix(3,4) working
190    
191            * R/AllGeneric.R: set "Math" (and "Math2") group generics in a way
192            that should also work in a future version of R.
193    
194    2007-06-21  Martin Maechler  <maechler@stat.math.ethz.ch>
195    
196            * NAMESPACE, R/AllClass.R: "xsparseVector" class union.
197    
198            * R/sparseVector.R: more *sparseVector coercions, notably for
199            non - double ones.
200    
201    2007-06-19  Martin Maechler  <maechler@stat.math.ethz.ch>
202    
203            * R/colSums.R: new file for all (col|row)(Sums|Means) methods,
204              notably the new ones building on the new .Call(.)s:
205    
206            * src/dgCMatrix.c (DEF_gCMatrix_COLSUMS): use to define
207            all 4 of [dlin]gCMatrix_colSums().
208    
209    2007-06-18 16:12  Douglas Bates <bates@stat.wisc.edu>
210    
211            * [r4472] src/Syms.h, src/init.c: Added Matrix_lengthSym
212            * [r4473] src/dgCMatrix.c: Modified dgCMatrix_colSums for sparseVector
213              result
214    
215    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
216    
217            * R/kronecker.R: fix typo (could lead to inf.recursion)
218            * test/simple.R: testing that
219    
220            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
221            method as well (which can have arguments, show() can't).
222    
223    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
224    
225            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
226              added dgCMatrix_colSums for [col,row][Sums,Means]
227    
228    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
229    
230            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
231              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
232              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
233            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
234              class
235            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
236              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
237              row names to store the levels - duh!  Added an example.
238    
239    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
240    
241            * src/Csparse.c (Csparse_validate): check for *repeated* entries
242            thanks to example from Christian Buchta; with a test here:
243            * tests/simple.R:
244    
245    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
246    
247            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
248            of colSums(*, sparseResult = TRUE)
249    
250    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
251    
252            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
253            'na.rm = FALSE' as "everywhere" else in R.
254    
255  2007-06-05 Douglas Bates <bates@stat.wisc.edu>  2007-06-05 Douglas Bates <bates@stat.wisc.edu>
256    
257            * [r4421] src/CSparse_install.sh: Modify for new organization of
258              CSparse package
259          * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of          * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
260            SuiteSparse            SuiteSparse
261          * [r4426] src/Makefile: add ./UFconfig to the include path for          * [r4426] src/Makefile: add ./UFconfig to the include path for
262            compilation            compilation
263          * [r4427] src/cs.c, src/cs.h: update to CSparse version 2.2.0          * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
264          * [r4428] inst/doc/UFsparse/* src/AMD/* src/CHOLMOD/*          * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
265            src/COLAMD/* src/UFconfig/UFconfig.h: Update to version 3.0.0 of            src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
           SuiteSparse  
266    
267  2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>  2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
268    

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