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revision 1855, Wed May 23 21:33:34 2007 UTC revision 2011, Fri Jul 20 12:56:10 2007 UTC
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1    2007-07-20  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/dMatrix.R: fix from Brian for   Math2(., digits = "missing")
4            * tests/group-methods.R: and regression-test it
5    
6    2007-07-19 19:45  Douglas Bates <bates@stat.wisc.edu>
7    
8            * [r4642] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
9              inst/include/cholmod.h, src/chm_common.c, src/init.c: Export
10              triplet_to_sparse, documentation, use typedefs
11    
12    2007-07-18  Martin Maechler  <maechler@stat.math.ethz.ch>
13    
14            * man/dpoMatrix-class.Rd: added 'corMatrix' example
15    
16            * src/dsyMatrix.[ch] (dsyMatrix_as_matrix): new 'keep_dimnames' arg
17            * src/dtrMatrix.[ch] (dtrMatrix_as_matrix): ditto
18            * src/init.c, R/dsyMatrix.R, R/dtrMatrix.R, R/lgTMatrix.R: ditto
19    
20            * R/lsparseMatrix.R: bug fix in "all" method
21            * R/Ops.R (.do.Logic.lsparse): "|" bug in borderline case
22    
23            * R/dsyMatrix.R (coerce->dsTMatrix): (i,j) slots should *not* have names
24            * R/ngTMatrix.R (coerce->ngTMatrix): ditto;
25                    + matrix |-> nMatrix coercion
26            * R/pMatrix.R: + setAs()  to dMatrix and from nMatrix
27            * man/pMatrix-class.Rd: ditto
28    
29            * R/Matrix.R (Summary): method for non-dMatrix
30    
31            * tests/Class+Meth.R (extraValid): new check about "dirty" slots
32            * tests/Class+Meth.R (tstMatrixClass): test norm(.);
33                    test all Summary methods.
34    
35    2007-07-16  Martin Maechler  <maechler@stat.math.ethz.ch>
36    
37            * R/dgeMatrix.R (norm, rcond): methods for 'matrix'
38    
39    2007-07-14  Martin Maechler  <maechler@stat.math.ethz.ch>
40    
41            * R/sparseMatrix.R (norm): simple methods for sparseMatrix
42    
43            * R/pMatrix.R (t?crossprod): methods for pMatrix
44    
45    2007-07-10  Douglas Bates  <bates@stat.wisc.edu>
46    
47            * src/dgeMatrix.c (dgeMatrix_colsums): Get the logic straight.
48    
49    2007-07-09 20:45  Douglas Bates <bates@stat.wisc.edu>
50    
51            * [r4579] src/dgeMatrix.c: Untangle horrible code in dgeMatrix_colsums
52              trying to fix a subtle bug - which has been somewhere else.
53    
54    2007-07-09 19:43  Martin Maechler <maechler@stat.math.ethz.ch>
55    
56            * [r4578] src/dgeMatrix.c: "cleaned" dgeMatrix_colsums() - but did not
57              solve the bug
58    
59    2007-07-08  Martin Maechler  <maechler@stat.math.ethz.ch>
60    
61            * src/dgCMatrix.c (compressed_to_TMatrix):
62    
63    2007-07-07  Martin Maechler  <maechler@stat.math.ethz.ch>
64    
65            * src/Csparse.c (Rsparse_validate): new, to have some validity
66            checking for RsparseMatrix
67            * src/dgCMatrix.c (xRMatrix_validate): ditto
68            * src/dtCMatrix.c (tRMatrix_validate): ditto
69    
70    2007-07-07  Douglas Bates <bates@stat.wisc.edu>
71    
72            * [r4567] R/AllClass.R: Slots already in RsparseMatrix were redefined in
73              lgRMatrix
74            * [r4568] DESCRIPTION: Prepare for bug-fix release
75            * [r4570] src/CHOLMOD/Check/cholmod_write.c: Include cholmod_matrixops.h
76              for declaration of cholmod_symmetry
77    
78    2007-07-06  Martin Maechler  <maechler@stat.math.ethz.ch>
79    
80            * DESCRIPTION (Version): 0.999375 merged into the trunk; ready for
81            release.
82    
83    2007-07-06 14:11  Douglas Bates <bates@stat.wisc.edu>
84    
85            * [r4559] src/iohb.c, src/iohb.h: Remove Harwell-Boeing input/output
86              functions - no longer used
87            * [r4560] src/HBMM.c, src/Mutils.c, src/dgTMatrix.c, src/dgeMatrix.c,
88              src/dspMatrix.c, src/dsyMatrix.c, src/dtCMatrix.c,
89              src/factorizations.c, src/sparseQR.c: Replace most calls to Calloc by
90              Alloca
91    
92    2007-07-06 13:14  Martin Maechler <maechler@stat.math.ethz.ch>
93    
94            * [r4558] inst/doc/Comparisons.Rnw, src/CHMfactor.c, src/Csparse.c,
95              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dense.c,
96              src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c, src/sparseQR.c,
97              src/t_gCMatrix_colSums.c: more R_CheckStack()s
98    
99    2007-07-05 18:12  Douglas Bates <bates@stat.wisc.edu>
100    
101            * [r4550] inst/include/Matrix.h: Add the macro N_AS_CHM_DN to "alloca"
102              the required amount of memory then call M_numeric_as_chm_dense.
103            * [r4556] src/Mutils.h, src/dgCMatrix.c: Define and use the Alloca macro
104              (like Calloc but calling alloca)
105    
106    2007-07-05  Martin Maechler  <maechler@stat.math.ethz.ch>
107    
108            * R/sparseMatrix.R (printSpMatrix): renamed from prSpMatrix()
109            and extended with more sophisticated 'col.names' option.
110            * NAMESPACE: export  printSparseMatrix()
111            * man/printSpMatrix.Rd: document, incl. examples
112    
113    2007-07-04 16:21  Douglas Bates <bates@stat.wisc.edu>
114    
115            * [r4543] src/cs_utils.c, src/cs_utils.h, src/dgCMatrix.c,
116              src/dtCMatrix.c, src/sparseQR.c: CSP typedef for *cs and macro
117              AS_CSP. API change - pass the empty structure to Matrix_as_cs.
118    
119    2007-07-04  Martin Maechler  <maechler@stat.math.ethz.ch>
120    
121            * DESCRIPTION (Version): 0.99875-4
122    
123            * tests/Class+Meth.R (tstMatrixClass): add dimnames, and hence test
124            some dimnames perservation.
125    
126            * R/dsTMatrix.R (t-method): keep dimnames
127            * R/dtTMatrix.R:  ditto
128    
129            * R/sparseMatrix.R (prSpMatrix): print colnames when non-trivial
130            and ncol(.) < 10
131    
132            * src/cs_utils.c: drop check_class() and use Matrix_check_class()
133            from Mutils.h
134    
135            * src/lgCMatrix.c ([ln]csc_to_matrix): no longer lose dimnames,
136            e.g. in as(<ngCMatrix>, "matrix")
137    
138    2007-07-01 13:27  Douglas Bates <bates@stat.wisc.edu>
139    
140            * [r4529] .: Create a branch for the API changes from the 0.99875
141              series to the 0.999375 series
142            * [r4530] DESCRIPTION, inst/include/Matrix.h,
143              inst/include/Matrix_stubs.c, src/CHMfactor.c, src/Csparse.c,
144              src/Mutils.h, src/Tsparse.c, src/chm_common.c, src/chm_common.h,
145              src/dense.c, src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c,
146              src/t_gCMatrix_colSums.c: API change - pass the empty structure to the
147              as_cholmod_x functions
148    
149    2007-06-30 09:05  Martin Maechler <maechler@stat.math.ethz.ch>
150    
151            * [r4527] trunk/Matrix/DESCRIPTION, trunk/Matrix/NAMESPACE,
152              trunk/Matrix/inst/doc/Comparisons.Rnw: add session- and hardware-info
153              to Comparisons
154    
155    >>>>>>> .merge-right.r4561
156    2007-06-29  Martin Maechler  <maechler@stat.math.ethz.ch>
157    
158            * DESCRIPTION (Version): 0.99875-3 ready to be released.
159    
160            * R/sparseMatrix.R (spMatrix): make spMatrix(3,4) working
161    
162            * R/AllGeneric.R: set "Math" (and "Math2") group generics in a way
163            that should also work in a future version of R.
164    
165    2007-06-21  Martin Maechler  <maechler@stat.math.ethz.ch>
166    
167            * NAMESPACE, R/AllClass.R: "xsparseVector" class union.
168    
169            * R/sparseVector.R: more *sparseVector coercions, notably for
170            non - double ones.
171    
172    2007-06-19  Martin Maechler  <maechler@stat.math.ethz.ch>
173    
174            * R/colSums.R: new file for all (col|row)(Sums|Means) methods,
175              notably the new ones building on the new .Call(.)s:
176    
177            * src/dgCMatrix.c (DEF_gCMatrix_COLSUMS): use to define
178            all 4 of [dlin]gCMatrix_colSums().
179    
180    2007-06-18 16:12  Douglas Bates <bates@stat.wisc.edu>
181    
182            * [r4472] src/Syms.h, src/init.c: Added Matrix_lengthSym
183            * [r4473] src/dgCMatrix.c: Modified dgCMatrix_colSums for sparseVector
184              result
185    
186    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
187    
188            * R/kronecker.R: fix typo (could lead to inf.recursion)
189            * test/simple.R: testing that
190    
191            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
192            method as well (which can have arguments, show() can't).
193    
194    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
195    
196            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
197              added dgCMatrix_colSums for [col,row][Sums,Means]
198    
199    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
200    
201            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
202              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
203              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
204            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
205              class
206            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
207              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
208              row names to store the levels - duh!  Added an example.
209    
210    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
211    
212            * src/Csparse.c (Csparse_validate): check for *repeated* entries
213            thanks to example from Christian Buchta; with a test here:
214            * tests/simple.R:
215    
216    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
217    
218            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
219            of colSums(*, sparseResult = TRUE)
220    
221    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
222    
223            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
224            'na.rm = FALSE' as "everywhere" else in R.
225    
226    2007-06-05 Douglas Bates <bates@stat.wisc.edu>
227    
228            * [r4421] src/CSparse_install.sh: Modify for new organization of
229              CSparse package
230            * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
231              SuiteSparse
232            * [r4426] src/Makefile: add ./UFconfig to the include path for
233              compilation
234            * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
235            * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
236              src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
237    
238    2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
239    
240            * R/Auxiliaries.R (emptyColnames): + argument msg.if.not.empty, used in
241            * R/sparseMatrix.R (prSpMatrix): now gives a message about
242            suppressed column names.
243    
244    2007-06-04 17:13  Douglas Bates <bates@stat.wisc.edu>
245    
246            * [r4418] src/Csparse.c, src/HBMM.c, src/Mutils.c, src/Mutils.h,
247              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dgCMatrix.c,
248              src/dgeMatrix.c, src/dpoMatrix.c, src/dpoMatrix.h, src/dppMatrix.c,
249              src/dppMatrix.h, src/dsCMatrix.c, src/dspMatrix.c, src/dspMatrix.h,
250              src/dsyMatrix.c, src/dsyMatrix.h, src/dtpMatrix.c, src/dtrMatrix.c:
251              Remove warnings after change to const char* CHAR
252    
253    2007-06-04 17:11  Douglas Bates <bates@stat.wisc.edu>
254    
255            * [r4417] inst/include/Matrix_stubs.c, inst/include/cholmod.h: Corrected
256              type of M_cholmod_ssmult
257    
258    2007-06-03 14:42  Douglas Bates <bates@stat.wisc.edu>
259    
260            * [r4412] inst/include/Matrix_stubs.c, inst/include/cholmod.h,
261              src/init.c: Yet another cholmod export - cholmod_ssmult
262    
263  2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>  2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>
264    
265          * NAMESPACE: exported drop0(), since          * NAMESPACE: exported drop0(), since

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