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revision 1507, Mon Sep 4 18:41:34 2006 UTC revision 2039, Mon Aug 6 18:49:27 2007 UTC
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1    2007-08-06  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * src/dsyMatrix.c (dsyMatrix_matrix_mm): 'b' might be matrix;
4            must copy its *expanded* x slot before LAPACK call.
5    
6            * tests/matprod.R: test the last days' changes.
7    
8    2007-08-03  Martin Maechler  <maechler@stat.math.ethz.ch>
9    
10            * R/Matrix.R (%*%, crossprod, tcrossprod): add method for
11                    ("Matrix", "matrix") which is needed in some cases.
12            Ditto for solve().
13    
14            * R/colSums.R (.as.dge.Fun): need ddenseMatrix methods to avoid
15            infinite recursion in dispatch for some cases.
16    
17    
18    2007-08-02  Martin Maechler  <maechler@stat.math.ethz.ch>
19    
20            * DESCRIPTION (Date): set ready for release -- 0.999375-1
21    
22    2007-08-01 15:44  Douglas Bates <bates@stat.wisc.edu>
23    
24            * [r4686] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
25              src/chm_common.c, src/chm_common.h: Change API for
26              numeric_as_chm_dense and N_AS_CHM_DN
27    
28    2007-08-01  Martin Maechler  <maechler@stat.math.ethz.ch>
29    
30            * src/dtrMatrix.c (dtrMatrix_matrix_mm): fix dimensionality check (!)
31            * tests/matprod.R: regr.test for it
32    
33    2007-07-20  Martin Maechler  <maechler@stat.math.ethz.ch>
34    
35            * R/dMatrix.R: fix from Brian for   Math2(., digits = "missing")
36            * tests/group-methods.R: and regression-test it
37    
38    2007-07-19 19:45  Douglas Bates <bates@stat.wisc.edu>
39    
40            * [r4642] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
41              inst/include/cholmod.h, src/chm_common.c, src/init.c: Export
42              triplet_to_sparse, documentation, use typedefs
43    
44    2007-07-18  Martin Maechler  <maechler@stat.math.ethz.ch>
45    
46            * man/dpoMatrix-class.Rd: added 'corMatrix' example
47    
48            * src/dsyMatrix.[ch] (dsyMatrix_as_matrix): new 'keep_dimnames' arg
49            * src/dtrMatrix.[ch] (dtrMatrix_as_matrix): ditto
50            * src/init.c, R/dsyMatrix.R, R/dtrMatrix.R, R/lgTMatrix.R: ditto
51    
52            * R/lsparseMatrix.R: bug fix in "all" method
53            * R/Ops.R (.do.Logic.lsparse): "|" bug in borderline case
54    
55            * R/dsyMatrix.R (coerce->dsTMatrix): (i,j) slots should *not* have names
56            * R/ngTMatrix.R (coerce->ngTMatrix): ditto;
57                    + matrix |-> nMatrix coercion
58            * R/pMatrix.R: + setAs()  to dMatrix and from nMatrix
59            * man/pMatrix-class.Rd: ditto
60    
61            * R/Matrix.R (Summary): method for non-dMatrix
62    
63            * tests/Class+Meth.R (extraValid): new check about "dirty" slots
64            * tests/Class+Meth.R (tstMatrixClass): test norm(.);
65                    test all Summary methods.
66    
67    2007-07-16  Martin Maechler  <maechler@stat.math.ethz.ch>
68    
69            * R/dgeMatrix.R (norm, rcond): methods for 'matrix'
70    
71    2007-07-14  Martin Maechler  <maechler@stat.math.ethz.ch>
72    
73            * R/sparseMatrix.R (norm): simple methods for sparseMatrix
74    
75            * R/pMatrix.R (t?crossprod): methods for pMatrix
76    
77    2007-07-10  Douglas Bates  <bates@stat.wisc.edu>
78    
79            * src/dgeMatrix.c (dgeMatrix_colsums): Get the logic straight.
80    
81    2007-07-09 20:45  Douglas Bates <bates@stat.wisc.edu>
82    
83            * [r4579] src/dgeMatrix.c: Untangle horrible code in dgeMatrix_colsums
84              trying to fix a subtle bug - which has been somewhere else.
85    
86    2007-07-09 19:43  Martin Maechler <maechler@stat.math.ethz.ch>
87    
88            * [r4578] src/dgeMatrix.c: "cleaned" dgeMatrix_colsums() - but did not
89              solve the bug
90    
91    2007-07-08  Martin Maechler  <maechler@stat.math.ethz.ch>
92    
93            * src/dgCMatrix.c (compressed_to_TMatrix):
94    
95    2007-07-07  Martin Maechler  <maechler@stat.math.ethz.ch>
96    
97            * src/Csparse.c (Rsparse_validate): new, to have some validity
98            checking for RsparseMatrix
99            * src/dgCMatrix.c (xRMatrix_validate): ditto
100            * src/dtCMatrix.c (tRMatrix_validate): ditto
101    
102    2007-07-07  Douglas Bates <bates@stat.wisc.edu>
103    
104            * [r4567] R/AllClass.R: Slots already in RsparseMatrix were redefined in
105              lgRMatrix
106            * [r4568] DESCRIPTION: Prepare for bug-fix release
107            * [r4570] src/CHOLMOD/Check/cholmod_write.c: Include cholmod_matrixops.h
108              for declaration of cholmod_symmetry
109    
110    2007-07-06  Martin Maechler  <maechler@stat.math.ethz.ch>
111    
112            * DESCRIPTION (Version): 0.999375 merged into the trunk; ready for
113            release.
114    
115    2007-07-06 14:11  Douglas Bates <bates@stat.wisc.edu>
116    
117            * [r4559] src/iohb.c, src/iohb.h: Remove Harwell-Boeing input/output
118              functions - no longer used
119            * [r4560] src/HBMM.c, src/Mutils.c, src/dgTMatrix.c, src/dgeMatrix.c,
120              src/dspMatrix.c, src/dsyMatrix.c, src/dtCMatrix.c,
121              src/factorizations.c, src/sparseQR.c: Replace most calls to Calloc by
122              Alloca
123    
124    2007-07-06 13:14  Martin Maechler <maechler@stat.math.ethz.ch>
125    
126            * [r4558] inst/doc/Comparisons.Rnw, src/CHMfactor.c, src/Csparse.c,
127              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dense.c,
128              src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c, src/sparseQR.c,
129              src/t_gCMatrix_colSums.c: more R_CheckStack()s
130    
131    2007-07-05 18:12  Douglas Bates <bates@stat.wisc.edu>
132    
133            * [r4550] inst/include/Matrix.h: Add the macro N_AS_CHM_DN to "alloca"
134              the required amount of memory then call M_numeric_as_chm_dense.
135            * [r4556] src/Mutils.h, src/dgCMatrix.c: Define and use the Alloca macro
136              (like Calloc but calling alloca)
137    
138    2007-07-05  Martin Maechler  <maechler@stat.math.ethz.ch>
139    
140            * R/sparseMatrix.R (printSpMatrix): renamed from prSpMatrix()
141            and extended with more sophisticated 'col.names' option.
142            * NAMESPACE: export  printSparseMatrix()
143            * man/printSpMatrix.Rd: document, incl. examples
144    
145    2007-07-04 16:21  Douglas Bates <bates@stat.wisc.edu>
146    
147            * [r4543] src/cs_utils.c, src/cs_utils.h, src/dgCMatrix.c,
148              src/dtCMatrix.c, src/sparseQR.c: CSP typedef for *cs and macro
149              AS_CSP. API change - pass the empty structure to Matrix_as_cs.
150    
151    2007-07-04  Martin Maechler  <maechler@stat.math.ethz.ch>
152    
153            * DESCRIPTION (Version): 0.99875-4
154    
155            * tests/Class+Meth.R (tstMatrixClass): add dimnames, and hence test
156            some dimnames perservation.
157    
158            * R/dsTMatrix.R (t-method): keep dimnames
159            * R/dtTMatrix.R:  ditto
160    
161            * R/sparseMatrix.R (prSpMatrix): print colnames when non-trivial
162            and ncol(.) < 10
163    
164            * src/cs_utils.c: drop check_class() and use Matrix_check_class()
165            from Mutils.h
166    
167            * src/lgCMatrix.c ([ln]csc_to_matrix): no longer lose dimnames,
168            e.g. in as(<ngCMatrix>, "matrix")
169    
170    2007-07-01 13:27  Douglas Bates <bates@stat.wisc.edu>
171    
172            * [r4529] .: Create a branch for the API changes from the 0.99875
173              series to the 0.999375 series
174            * [r4530] DESCRIPTION, inst/include/Matrix.h,
175              inst/include/Matrix_stubs.c, src/CHMfactor.c, src/Csparse.c,
176              src/Mutils.h, src/Tsparse.c, src/chm_common.c, src/chm_common.h,
177              src/dense.c, src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c,
178              src/t_gCMatrix_colSums.c: API change - pass the empty structure to the
179              as_cholmod_x functions
180    
181    2007-06-30 09:05  Martin Maechler <maechler@stat.math.ethz.ch>
182    
183            * [r4527] trunk/Matrix/DESCRIPTION, trunk/Matrix/NAMESPACE,
184              trunk/Matrix/inst/doc/Comparisons.Rnw: add session- and hardware-info
185              to Comparisons
186    
187    >>>>>>> .merge-right.r4561
188    2007-06-29  Martin Maechler  <maechler@stat.math.ethz.ch>
189    
190            * DESCRIPTION (Version): 0.99875-3 ready to be released.
191    
192            * R/sparseMatrix.R (spMatrix): make spMatrix(3,4) working
193    
194            * R/AllGeneric.R: set "Math" (and "Math2") group generics in a way
195            that should also work in a future version of R.
196    
197    2007-06-21  Martin Maechler  <maechler@stat.math.ethz.ch>
198    
199            * NAMESPACE, R/AllClass.R: "xsparseVector" class union.
200    
201            * R/sparseVector.R: more *sparseVector coercions, notably for
202            non - double ones.
203    
204    2007-06-19  Martin Maechler  <maechler@stat.math.ethz.ch>
205    
206            * R/colSums.R: new file for all (col|row)(Sums|Means) methods,
207              notably the new ones building on the new .Call(.)s:
208    
209            * src/dgCMatrix.c (DEF_gCMatrix_COLSUMS): use to define
210            all 4 of [dlin]gCMatrix_colSums().
211    
212    2007-06-18 16:12  Douglas Bates <bates@stat.wisc.edu>
213    
214            * [r4472] src/Syms.h, src/init.c: Added Matrix_lengthSym
215            * [r4473] src/dgCMatrix.c: Modified dgCMatrix_colSums for sparseVector
216              result
217    
218    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
219    
220            * R/kronecker.R: fix typo (could lead to inf.recursion)
221            * test/simple.R: testing that
222    
223            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
224            method as well (which can have arguments, show() can't).
225    
226    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
227    
228            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
229              added dgCMatrix_colSums for [col,row][Sums,Means]
230    
231    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
232    
233            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
234              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
235              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
236            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
237              class
238            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
239              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
240              row names to store the levels - duh!  Added an example.
241    
242    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
243    
244            * src/Csparse.c (Csparse_validate): check for *repeated* entries
245            thanks to example from Christian Buchta; with a test here:
246            * tests/simple.R:
247    
248    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
249    
250            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
251            of colSums(*, sparseResult = TRUE)
252    
253    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
254    
255            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
256            'na.rm = FALSE' as "everywhere" else in R.
257    
258    2007-06-05 Douglas Bates <bates@stat.wisc.edu>
259    
260            * [r4421] src/CSparse_install.sh: Modify for new organization of
261              CSparse package
262            * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
263              SuiteSparse
264            * [r4426] src/Makefile: add ./UFconfig to the include path for
265              compilation
266            * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
267            * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
268              src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
269    
270    2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
271    
272            * R/Auxiliaries.R (emptyColnames): + argument msg.if.not.empty, used in
273            * R/sparseMatrix.R (prSpMatrix): now gives a message about
274            suppressed column names.
275    
276    2007-06-04 17:13  Douglas Bates <bates@stat.wisc.edu>
277    
278            * [r4418] src/Csparse.c, src/HBMM.c, src/Mutils.c, src/Mutils.h,
279              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dgCMatrix.c,
280              src/dgeMatrix.c, src/dpoMatrix.c, src/dpoMatrix.h, src/dppMatrix.c,
281              src/dppMatrix.h, src/dsCMatrix.c, src/dspMatrix.c, src/dspMatrix.h,
282              src/dsyMatrix.c, src/dsyMatrix.h, src/dtpMatrix.c, src/dtrMatrix.c:
283              Remove warnings after change to const char* CHAR
284    
285    2007-06-04 17:11  Douglas Bates <bates@stat.wisc.edu>
286    
287            * [r4417] inst/include/Matrix_stubs.c, inst/include/cholmod.h: Corrected
288              type of M_cholmod_ssmult
289    
290    2007-06-03 14:42  Douglas Bates <bates@stat.wisc.edu>
291    
292            * [r4412] inst/include/Matrix_stubs.c, inst/include/cholmod.h,
293              src/init.c: Yet another cholmod export - cholmod_ssmult
294    
295    2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>
296    
297            * NAMESPACE: exported drop0(), since
298            * man/drop0.Rd: I have seen several cases, I really wanted to use
299            it, so our users may want too.
300    
301    2007-05-22  Martin Maechler  <maechler@stat.math.ethz.ch>
302    
303            * man/colSums.Rd: separately document colSums() etc, since these
304            have the extra argument 'sparseResult'.
305    
306    2007-05-21  Martin Maechler  <maechler@stat.math.ethz.ch>
307    
308            * R/sparseMatrix.R (spMatrix): utility (T)sparse Matrix constructor;
309            * man/spMatrix.Rd: docu., including examples
310    
311            * R/Auxiliaries.R (sp.colMeans): etc, using a patched callGeneric(),
312            in order to make colMeans() etc fast *and* correct.
313            * R/sparseVector.R (replSPvec): "[<-" functionality for
314            sparseVectors; tested in
315            * tests/simple.R:
316    
317    2007-05-19  Martin Maechler  <maechler@stat.math.ethz.ch>
318    
319            * R/sparseMatrix.R (print.sparseSummary): and summary() method for
320            (very) sparse Matrices; output similar to Matlab's print().
321    
322    2007-05-17  Douglas Bates  <bates@stat.wisc.edu>
323    
324            * src/HBMM.c (Matrix_writeMatrixMarket): Write 1-based, not
325            0-based, indices (Jose Quesada <quesada@gmail.com>).
326    
327    2007-05-16  Douglas Bates  <bates@stat.wisc.edu>
328    
329            * R/CHMfactor.R: Added solve methods for a CHMfactor object.
330    
331    2007-05-16  Martin Maechler  <maechler@stat.math.ethz.ch>
332    
333            * R/Auxiliaries.R (sparsapply): new utility, much faster than
334            tapply1() for large sparse matrices.
335    
336    2007-05-15  Martin Maechler  <maechler@stat.math.ethz.ch>
337    
338            * R/Matrix.R (dim<-): reshape now via sparseVector.
339    
340            * R/sparseVector.R: methods and function for
341            * R/AllClass.R: new "sparseVector" class and daughters.
342            * NAMESPACE: export new classes
343    
344    2007-05-14  Martin Maechler  <maechler@stat.math.ethz.ch>
345    
346            * DESCRIPTION (Version): 0.99875-1
347            * src/Makefile.win: also remove Lapack code from here (cf. 04-25).
348    
349    2007-05-11  Martin Maechler  <maechler@stat.math.ethz.ch>
350    
351            * R/Tsparse.R ([, Tsparse): fix last case: *duplicated*, symmetric
352            indexing
353            * tests/indexing.R: test set for that.
354    
355    2007-05-08  Martin Maechler  <maechler@stat.math.ethz.ch>
356    
357            * R/Tsparse.R (replTmat): fix the case of *duplicated* index
358            entries.
359            * tests/indexing.R(out): add regression test for it
360    
361    2007-04-30  Martin Maechler  <maechler@stat.math.ethz.ch>
362    
363            * R/(l(dense|sparse))?Matrix.R (!): use 'x', not 'e1' as argument
364            name for "!" method definitions.
365    
366    2007-04-26  Martin Maechler  <maechler@stat.math.ethz.ch>
367    
368            * R/Tsparse.R (intI): new utility, used for "[" :
369                    Cleanup up there, and fixes for duplicated indices - more TODO!
370    
371            * tests/indexing.R(out): more tests
372    
373    2007-04-25  Douglas Bates  <bates@stat.wisc.edu>
374    
375            * DESCRIPTION,src/Makefile: require R>= 2.5.0 and remove Lapack
376            code that is now part of the R Lapack library.
377    
378            * src/init.c,inst/include/{Matrix_stubs.c,cholmod.h}:export
379            cholmod_factorize_p (used in lme4 for GLMMs and NLMMs).
380    
381    2007-04-21  Martin Maechler  <maechler@stat.math.ethz.ch>
382    
383            * R/Matrix.R (image): method for all Matrices, not just sparse ones.
384    
385    2007-04-17  Martin Maechler  <maechler@stat.math.ethz.ch>
386    
387            * R/Auxiliaries.R (tapply1): unname(.) -> colSums() etc don't end
388            up with extraneous names '0'...'<n-1>'
389    
390    2007-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
391    
392            * R/dgTMatrix.R (mat2dgT): care about NAs
393    
394    2007-04-11  Martin Maechler  <maechler@stat.math.ethz.ch>
395    
396            * R/kronecker.R: triangularity preserving methods
397    
398    2007-03-27  Martin Maechler  <maechler@stat.math.ethz.ch>
399    
400            * R/kronecker.R: new file collecting kronecker() methods in one
401                    place.  Goal: become much faster!
402    
403    2007-03-23  Martin Maechler  <maechler@stat.math.ethz.ch>
404    
405            * src/dtCMatrix.c (dtCMatrix_solve): use the new code from Kasper
406            Kristensen based cs_spsolve() instead of _lsolve & _usolve which
407            can be much faster.
408    
409            * tests/matprod.R: add regression tests for these (upper & lower).
410    
411    2007-03-19  Martin Maechler  <maechler@stat.math.ethz.ch>
412    
413            * R/Matrix.R (diff): method for our Matrices.
414    
415            * R/sparseMatrix.R (isDiagonal): check dim()!
416    
417    2007-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
418    
419            * R/Matrix.R (dim<-): new method for "reshape()" built on a
420            proposal from Tamas Papp.
421    
422    2007-03-16  Martin Maechler  <maechler@stat.math.ethz.ch>
423    
424            * R/AllGeneric.R: remove all  if(!isGeneric(.))  clauses
425    
426            * R/zzz.R (.onLoad, .onUnload): do *not* leave bind_activation(TRUE);
427            rather define and export  cBind() and rBind() only.
428            --> useRs *must* change code that used to have cbind()/rbind() !!
429    
430            * R/bind.R: change tests from cbind() to cBind() and similarly to rBind()
431            * R/bind.Rout.save: ditto
432    
433    2007-02-16  Douglas Bates  <bates@r-project.org>
434    
435            * DESCRIPTION (Date, Version): 0.9975-11 with new date
436            * src/dgCMatrix.c (R_to_CMatrix, compressed_to_TMatrix): remove
437            const modifier on declaration of the array 'valid'
438    
439    2007-02-12  Douglas Bates  <bates@stat.wisc.edu>
440    
441            * R/CHMfactor.R: Add image method (coercion to sparseMatrix).
442    
443    2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>
444    
445            * DESCRIPTION (Date, Version): 0.9975-10 with new date.
446    
447            * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix
448            * tests/simple.R: test the above and some of these coercions:
449    
450            * R/nsparseMatrix.R: coercing "Csparse" to "lsparseMatrix";
451                    be careful to avoid infinite recursion, using new coercions in
452            * R/ngCMatrix.R and nsC... and ntC...
453            * R/lsparseMatrix.R: ditto
454    
455            * R/SparseM-conv.R: more conversion, notably for triplet matrices.
456    
457            * src/dgCMatrix.c (R_to_C_Matrix): port Doug's fix and
458            * R/Rsparse.R: reactivate .Call()s
459    
460            * tests/Class+Meth.R: a bit more on actual classes
461    
462    2007-02-04  Douglas Bates  <bates@stat.wisc.edu>
463    
464            * src/dgCMatrix.c (compressed_to_TMatrix): fix memory bug using strdup()
465    
466    2007-02-03  Martin Maechler  <maechler@stat.math.ethz.ch>
467    
468            * DESCRIPTION (Version): 0.9975-10 to upload
469    
470            * tests/Class+Meth.R (tstMatrixClass): require coercions to
471            specific classes less unconditionally.
472    
473            * R/Auxiliaries.R: get rid of as_Tsparse() and as_Rsparse()
474    
475            * R/Tsparse.R (triu): etc, use as(*, "TsparseMatrix") instead of as_Tsparse()
476    
477            * R/Rsparse.R (.R.2.T): R-level workaround using compressed_to_TMatrix.
478            * R/Rsparse.R (.R.2.C): R-level workaround since C-level
479            R_to_CMatrix segfaults on one platform.
480            Eliminate most coercion method to *specific* classes, and replace
481            with virtual classes coercions.
482    
483    
484    2007-02-01  Martin Maechler <maechler@stat.math.ethz.ch>
485    
486            * src/init.c: export the CHM...._validate() placeholders, since
487            they *are* called.
488    
489            * tests/Class+Meth.R (classCanCoerce): and starting to test
490            all as(<from>, <to>)
491    
492    2007-01-30  Martin Maechler  <maechler@stat.math.ethz.ch>
493    
494            * R/Tsparse.R ([): more care when subsetting triangular Tsparse
495            * tests/indexing.R: tested now
496            * tests/indexing.Rout.save: updated
497    
498            * src/Csparse.c (Csparse_to_dense): use Rkind = -1 for PATTERN to
499            * src/chm_common.c (chm_dense_to_SEXP): return "ngeMatrix" when
500            appropriate.
501    
502            * NAMESPACE: export a trivial
503            * R/Matrix.R: drop() Matrix-method
504    
505            * R/AllClass.R: moved all prototypes to virtual super classes.
506    
507            * R/Rsparse.R: many more coercions to have less exceptions in
508            * tests/Class+Meth.R:
509    
510            * R/Ops.R (Compare): tweak for case with NA
511            * tests/simpl.R: hence another 'FIXME' eliminated
512    
513    2007-01-29  Martin Maechler  <maechler@stat.math.ethz.ch>
514    
515            * R/diagMatrix.R (solve): the obvious methods for diagonalMatrix
516            objects.
517    
518            * tests/Class+Meth.R (tstMatrixClass): now testing diag(), nnzero(),
519              and more of "!", "&", "|", all, any; coercions
520    
521            * R/Rsparse.R: many coercions (which enable quite a few other
522            methods), thanks to enhancements in
523            * src/dgCMatrix.c (R_to_CMatrix): new, and
524            * src/dgCMatrix.c (compressed_to_TMatrix): now for (d,l,n) ,
525            symmetric & triangular and ..RMatrix objects.
526    
527            * src/TMatrix_as.c (Matrix_T_as_DENSE,Matrix_T_as_GENERAL):
528            renamed file from src/dsTMatrix.c;
529            now dealing with symmetric and triangular Tsparse coercions, both
530            to dense and general.
531    
532    2007-01-27  Martin Maechler  <maechler@stat.math.ethz.ch>
533    
534            * src/dsTMatrix.c: has now "l" and "n" methods besides the "d" ones.
535    
536            * R/Ops.R (Arith): <dgCMatrix> o <numeric> now remains sparse
537            where sensible when the <numeric> is of length > 1.
538    
539    2007-01-26  Martin Maechler  <maechler@stat.math.ethz.ch>
540    
541            * R/Matrix.R ([<-): for M[] <- value: fix length
542    
543    2007-01-25  Martin Maechler  <maechler@stat.math.ethz.ch>
544    
545            * R/Auxiliaries.R (n2l_Matrix): new, to be used in
546            * R/ndenseMatrix.R: new coercions n* -> l*
547    
548    2007-01-22  Martin Maechler  <maechler@stat.math.ethz.ch>
549    
550            * R/triangularMatrix.R: new file; simple triu() and tril() methods.
551    
552            * R/Ops.R ("Logic"): and other "Ops", many updates
553    
554    2007-01-18  Martin Maechler  <maechler@stat.math.ethz.ch>
555    
556            * src/Mutils.h (SET_DimNames): new utility
557    
558            * R/Auxiliaries.R (nnzero): improved and now exported via
559    
560            * NAMESPACE: + nnzero(); length() == prod(dim(.)) method for all "Matrix" objects
561    
562    2007-01-17  Martin Maechler  <maechler@stat.math.ethz.ch>
563    
564            * R/diagMatrix.R (!): fix typo.
565    
566    2007-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
567    
568            * R/Auxiliaries.R (as_Csparse): and quite a few others:
569                    allow to pass class definition --> speedup
570            * R/sparseMatrix.R: apply the above
571    
572            * R/Csparse.R: coercion Csparse* to dense* now preserves shape properties.
573    
574            * src/Mutils.h (mMatrix_as_geMatrix): new, based on
575            * src/Mutils.c (dup_mMatrix_as_geMatrix): new; generalization of
576            old dup_mMatrix_as_dgeMatrix), eliminating a long-standing "FIXME".
577    
578            * src/dense.c (dense_to_Csparse): use new mMatrix_as_geMatrix()
579    
580            * R/denseMatrix.R (.dense2C): based on dense_to_Csparse: name it,
581            and use it for "sparse*" as well, since it's faster than the
582            as_Csparse(.) way.
583    
584    2007-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
585    
586            * R/Ops.R ("Logic"): more methods, notably an  <lgC> o <lgC> one.
587    
588    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
589    
590            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
591            as method for   M[ ij ] <- v
592            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
593    
594            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
595            FALSE answer
596    
597            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
598            * tests/indexing.R: test it, and some of the above
599    
600    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
601    
602            * R/Auxiliaries.R (is_duplicatedT): new utility
603    
604    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
605    
606            * src/init.c (R_init_Matrix): export cholmod_scale
607    
608    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
609    
610            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
611            base::as.matrix to (x, ...)
612    
613    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
614    
615            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
616            file; start using "Logic", hence
617    
618            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
619            * NAMESPACE: import and export "Logic"
620    
621    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
622    
623            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
624            only needed previously to R version 2.5.0.
625    
626    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
627    
628            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
629    
630            * R/Tsparse.R (replTmat): fix subassignment of triangular
631            * R/Csparse.R (replCmat): ditto
632            * tests/indexing.R: more tests, incl the above fix
633    
634    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
635    
636            * R/Auxiliaries.R (drop0): extend for non CSparse
637            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
638    
639            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
640                    use uplo correctly (!); other places: use uplo_P() macro
641    
642            * R/Csparse.R (replCmat): call diagU2N() when needed
643            * R/Tsparse.R (replTmat): ditto
644    
645            * src/dtCMatrix.c (tCMatrix_validate): new
646            * src/dtTMatrix.c (tTMatrix_validate): new, used in
647            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
648    
649            * R/diagMatrix.R (replDiag): to use in [<-
650    
651    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
652    
653            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
654                    also more general diagU2N().
655    
656    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
657    
658            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
659            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
660    
661    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
662    
663            * tests/bind.R: a few more cases
664            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
665    
666            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
667            * R/ddenseMatrix.R (cbind2/rbind2)
668            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
669            * tests/indexing.R
670            * tests/indexing.Rout.save: updated
671    
672    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
673    
674            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
675            * tests/indexing.R
676    
677    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
678    
679            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
680            align with proper position of "0", i.e., right for integers.
681            argument 'align' by default is "fancy".
682    
683    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
684    
685            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
686            * R/Csparse.R: and fix "Compare" for more cases.
687            * tests/Class+Meth.R: test some of these (m == m, m != m)
688    
689    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
690    
691            * R/lsparseMatrix.R: all() and any() methods
692            * R/ldenseMatrix.R:      ditto
693            * NAMESPACE, R/Matrix.R: ditto
694    
695            * man/all-methods.Rd: document them minimally
696    
697            * tests/simple.R: add a few examples for these
698    
699    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
700    
701            * R/Tsparse.R ([): fix long standing typo in symmetric case
702            * man/dsCMatrix-class.Rd: add example exhibiting the above case
703    
704    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
705    
706            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
707            to LL before converting to a sparse matrix. (The LDL form can be
708            converted to a sparse matrix but it is implicitly a unit
709            triangular matrix and a diagonal matrix overwritten on the diagonal.)
710    
711    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
712    
713            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
714    
715    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
716    
717            * DESCRIPTION (Version): updated -> release 0.9975-7
718            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
719    
720    2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
721    
722            * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method
723    
724    2006-11-29  Douglas Bates  <bates@stat.wisc.edu>
725    
726            * src/dgeMatrix.c (dgeMatrix_solve): Check error code from dgetri.
727            * tests/dg_Matrix.R: Add Barry Rowlingson's test of a matrix that
728            is exactly singular.
729    
730    2006-11-07  Martin Maechler  <maechler@stat.math.ethz.ch>
731    
732            * DESCRIPTION (Date): updated -> release 0.9975-6
733    
734    2006-11-06  Martin Maechler  <maechler@stat.math.ethz.ch>
735    
736            * R/Csparse.R (replCmat): symmetric indexing of symmetric matrix
737            now returns symmetric.
738    
739            * R/zzz.R ("diag<-"): replace "diag<-" in base for R <= 2.4.x
740    
741            * R/Matrix.R (.M.sub.i.2col):  new, for  M[ cbind(i,j) ] indexing.
742            * R/Matrix.R (.M.repl.i.2col): new, for  M[ cbind(i,j) ] <- value
743    
744            * R/Auxiliaries.R (.type.kind): added
745    
746    2006-11-04  Martin Maechler  <maechler@stat.math.ethz.ch>
747    
748            * src/cs.[ch]: updated to CSparse Version 2.0.3 by simply
749            running src/CSparse_install.sh
750    
751            * R/denseMatrix.R: "[": keep symmetric on symmetric indexing.
752    
753    2006-11-03  Martin Maechler  <maechler@stat.math.ethz.ch>
754    
755            * src/dsCMatrix.c (dsCMatrix_Csparse_solve): new
756            * R/dsCMatrix.R (solve): "fully-sparse" using the above.
757    
758            * R/AllClass.R: "pMatrix" now also inherits from "generalMatrix"
759    
760            * tests/Class+Meth.R (tstMatrixClass): now assure
761            the (important in method programming) property :
762    
763                    ###>>  Every "Matrix" is either
764                    ###>>  "general*", "symmetric*", "triangular*" or "diagonal*"
765    
766                    (where "*" stands for "Matrix")
767    
768            * R/Auxiliaries.R (diagU2N): now .Call()s Csparse_diagU2N for <Csparse>
769    
770            * R/dMatrix.R (Compare(<dMatrix>,<dMatrix>): update and
771            * tests/validObj.R: checks for "comparison"
772    
773            * R/sparseMatrix.R ([): improved indexing for sparse;
774                    trying to keep <symmetric>[ n, n] symmmetric
775    
776            * tests/indexing.R: indexing for logical sparse now ok
777    
778    
779    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
780    
781            * src/Tsparse.c: use xTsparse_validate() , and hence remove
782    
783            * src/{ltC,lsC,lgT}Matrix.[ch]: removed
784    
785    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
786    
787            * R/AllClass.R (Matrix-class): check length of dimnames in validity.
788    
789            * tests/simple.R: validObject() checking the above.
790    
791            * src/dgCMatrix.c (xCMatrix_validate): new, small and simple,
792            replacing both dgCMatrix_validate and lgCM*.
793    
794            * src/Csparse.c (Csparse_dense_prod, etc): do not lose dimnames;
795            fix dimnames setting in other places.
796            * src/chm_common.c (chm_dense_to_SEXP): now can pass dimnames
797    
798    2006-11-01  Martin Maechler  <maechler@stat.math.ethz.ch>
799    
800            * R/Csparse.R,src/Csparse.c, etc: tcrossprod(<CsparseM>,<CsparseM>)
801    
802            * R/sparseMatrix.R (isSymmetric): drop 'factors' slot for
803            symmetry test, via
804            * R/Auxiliaries.R (.as.dgC.0.factors):
805    
806    2006-11-01  Douglas Bates  <bates@r-project.org>
807    
808            * R/Csparse.R,src/Csparse.c,tests/matprod.R,
809            man/CsparseMatrix-class.Rd: crossprod(<CsparseMatrix>,
810            <CsparseMatrix>) added
811    
812    2006-10-30  Martin Maechler  <maechler@stat.math.ethz.ch>
813    
814            * tests/matprod.R: add a variation of Harri's example
815    
816            * R/dsparseMatrix.R: fix crossprod(<dsparse>, <dge>) to *not*
817            recursive infinitely.
818    
819            * R/dgCMatrix.R: + solve(<sparse>, <sparse>)
820    
821            * tests/indexing.R: add test for the "<" bug fixed 10-27 in R/dMatrix.R
822    
823    2006-10-28  Martin Maechler  <maechler@stat.math.ethz.ch>
824    
825            * tests/Class+Meth.R (tstMatrixClass): more: use non-trivial
826            matrix if possible; test m+m == 2*m; now test dgRMatrix.
827            * R/dgRMatrix.R (.to.dgR): a few more coercions, in order to
828            satisfy the above test.
829    
830    2006-10-27  Martin Maechler  <maechler@stat.math.ethz.ch>
831    
832            * R/Matrix.R (Ops):  <Matrix> o <matrix>  method added
833    
834            * R/dgCMatrix.R: solve(a, b="missing") based on
835            * src/dgCMatrix.c (dgCMatrix_matrix_solve): extend to work with
836            RHS = NULL.
837    
838            * R/diagMatrix.R (diagdiagprod): extend %*% etc to ldiMatrix;
839            add more (needed) [t]crossprod() methods.
840    
841            * man/ddiMatrix-class.Rd: more info, notably on 'diag'
842    
843            * R/Auxiliaries.R (as_CspClass): cleanup
844            (drop0): internal utility for "Csparse_drop(*, 0)"
845            (.bail.out.2): encourage active feedback
846    
847    2006-10-26  Martin Maechler  <maechler@stat.math.ethz.ch>
848    
849            * R/dMatrix.R(Compare): new(), then slots [no validity check]
850    
851            * src/Csparse.c (Csparse_validate): fixed (and more efficient in
852            non-valid or 'sorted' case).
853    
854            * R/dsparseMatrix.R: add "chol" method.
855            * R/ddenseMatrix.R: ditto
856    
857            * R/diagMatrix.R (Ops): group methods for  <diagonal> o <sparse>
858            * NAMESPACE (Ops)
859            * R/diagMatrix.R (diag2T): simple utility used "higher level"
860            coercion; deprecating direct lower level coercions.
861    
862            * R/*.R (seq): use seq_len() and seq_along() where possible.
863    
864    
865    2006-10-23  Martin Maechler  <maechler@stat.math.ethz.ch>
866    
867            * DESCRIPTION (Version): 0.9975-5 ready for release
868    
869    2006-10-20  Douglas Bates  <bates@stat.wisc.edu>
870    
871            * src/init.c (R_init_Matrix): export more cholmod CCallable functions.
872    
873    2006-10-20  Martin Maechler  <maechler@stat.math.ethz.ch>
874    
875            * R/AllClass.R (corMatrix): add 'validity' check;
876                    comment out unused "LDL" class definition
877            * NAMESPACE: mention, but do not export "LDL" class
878            * R/corMatrix.R: new (simple), needed for R-devel with
879            * tests/Class+Meth.R (tstMatrixClass): 1 exception for corMatrix
880              coerce and t() exceptions for all 5 'Mat.MatFact' classes.
881    
882    2006-10-19  Douglas Bates  <bates@stat.wisc.edu>
883    
884            * src/chm_common.h: Add R_cholmod_start to initialize cholmod to
885            use Rprintf and R's error handling.
886    
887    2006-10-17  Martin Maechler  <maechler@stat.math.ethz.ch>
888    
889            * R/diagMatrix.R (%*%): rep(*, each = .) in Matrix %*% diagonal.
890            * tests/matprod.R: add tests for the bug fixed.
891    
892    2006-10-11  Douglas Bates  <bates@stat.wisc.edu>
893    
894            * src/HBMM.[ch]: remove HarwellBoeing format for writing.
895            * src/SOURCES_C.mkf (SOURCES_C): no longer compile iohb.c
896    
897    2006-10-06  Douglas Bates  <bates@stat.wisc.edu>
898    
899            * R/d[gs]CMatrix.R: deprecate the writeHB function.  Use writeMM instead.
900    
901    2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
902    
903            * DESCRIPTION (Version): 0.9975-3
904    
905            * R/diagMatrix.R (bdiag): new function constructing block diagonal
906            (sparse) matrices.
907            * man/bdiag.Rd: docu + examples
908    
909            * R/Csparse.R (replCmat): calling new Csparse_drop() now.
910    
911            * src/Csparse.c (Csparse_general_to_symmetric, Csparse_drop): new functions
912            * R/lsCMatrix.R: three more coercions to lsC (thanks to the above)
913    
914            * R/diagMatrix.R (Diagonal): '[<-' method for diag.matrices such
915            that result is sparse or diagonal (and not dense).
916    
917            * man/Subassign-methods.Rd: fix examples
918    
919            * R/Matrix.R (Matrix):  Matrix(0, *) or Matrix(*, sparse=TRUE)
920            should always return a sparse (and not sometimes a diagonal) matrix.
921    
922    2006-10-05  Martin Maechler  <maechler@stat.math.ethz.ch>
923    
924            * R/Matrix.R ([<-): also for value "Matrix" or "matrix"
925    
926    2006-10-04  Douglas Bates  <bates@stat.wisc.edu>
927    
928            * DESCRIPTION (Version): 0.9975-2
929    
930            * inst/include/Matrix_stubs.c (M_cholmod_sparse_to_triplet): export more symbols
931    
932    2006-10-02  Douglas Bates  <bates@R-project.org>
933    
934            * tests/dg_Matrix.R: Simplify test taking into account new code.
935    
936    2006-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
937    
938            * R/Csparse.R (replCmat): improve for missing i / j in non-simple cases
939    
940            * R/lsTMatrix.R: new files w/ missing methods
941            * R/nsTMatrix.R:  "  'for completeness'
942    
943            * tests/Class+Meth.R: a bit less 'not.ok.classes'
944    
945            * R/Tsparse.R (t): generalized "t" method from "dgT*" to "Tsparse*"
946    
947    
948    2006-09-28  Douglas Bates  <bates@R-project.org>
949    
950            * src/dppMatrix.h: Ensure definition of dspMatrix_validate is
951            included.
952    
953            * src/init.c, inst/include/{Matrix.h,Matrix_stubs.h,cholmod.h}:
954            Export C-callable functions used in Zt_create in lme4.
955    
956    2006-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
957    
958            * DESCRIPTION (Version): 0.9975-1
959    
960            * tests/simple.R: less checks fail; using NA, found that our
961                    kronecker() is not base-compatible with NA's.
962    
963            * R/dMatrix.R: "Compare" method now implemented for all cases
964    
965            * R/Auxiliaries.R (indTri): == which([lower/upper].tri( * )) new utility
966    
967            * man/dtpMatrix-class.Rd: mention length of 'x' slot
968    
969            * src/dtpMatrix.c (dtpMatrix_validate): fix check
970            * src/dspMatrix.c (dspMatrix_validate): ditto
971    
972            * R/dtTMatrix.R (gt2tT): fix ("l" -> "n")
973              including coercion to [nl]tTMatrix.
974    
975            * R/diagMatrix.R (show): print a header line as for other classes.
976    
977    2006-09-27  Martin Maechler  <maechler@stat.math.ethz.ch>
978    
979            * src/Makefile.win (SUBDIRS): fix typo
980    
981    2006-09-19  Martin Maechler  <maechler@stat.math.ethz.ch>
982    
983            * DESCRIPTION (Date): ready to release 0.9975-0 to CRAN
984    
985    2006-09-18  Douglas Bates  <bates@stat.wisc.edu>
986    
987            * R/[CT]sparse.R (crossprod and tcrossprod): Handle the cases for x
988            symmetric and y missing in R code using %*% (cholmod_aat doesn't
989            accept a symmetric matrix).
990            * tests/group-methods.R: Uncomment test of crossprod applied to
991            lsCMatrix objects.
992    
993    2006-09-18  Martin Maechler  <maechler@stat.math.ethz.ch>
994    
995            * R/AllClass.R (symmetricMatrix): add validity method (available
996            in C for a long time). Many "n..Matrix": drop (wrong) validity arg.
997    
998            * src/lgCMatrix.c (lgCMatrix_validate): check 'x' slot (!)
999    
1000            * tests/indexing.Rout.save:
1001            * tests/indexing.R: additions, mainly for 'lsparse'
1002    
1003            * R/diagMatrix.R (Diagonal) & coercion to lgTMatrix: fixes for NA
1004            case.
1005    
1006            * R/Auxiliaries.R (nz.NA): new utility now used in nnzero()
1007    
1008    2006-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
1009    
1010            * R/sparseMatrix.R (prSpMatrix): print logical NAs "visibly"
1011                    as 'N' (1-letter - Ok?)
1012    
1013            * tests/group-methods.R: add test for logical + NAs
1014    
1015            * R/dMatrix.R ("Compare"): fix to work with NA's
1016    
1017            * R/AllClass.R: "Cholesky" etc now inherit from MatrixFactorization.
1018    
1019            * src/lgCMatrix.c (ncsc_to_matrix): renamed from lcsc_to_matrix()
1020                    which is implemented.
1021    
1022    2006-09-15  Martin Maechler  <maechler@stat.math.ethz.ch>
1023    
1024            * src/chm_common.c: coerce logical <-> double instead of
1025            typecasting;  needed for "l" matrix handling in cholmod.
1026    
1027            * tests/other-pkgs.R (graph): small extension in "graph" checks.
1028    
1029            * R/sparseMatrix.R (graphNEL -> Tsparse): method for weight case.
1030            (Tsp2grNEL): other fixes needed
1031    
1032    2006-09-11  Martin Maechler  <maechler@stat.math.ethz.ch>
1033    
1034            * R/AllClass.R ("nMatrix"): and subclasses for "nonzero pattern"
1035                    Matrices, since "lMatrix", also "lsparseM" can have NA
1036            * R/ndenseMatrix.R, etc: new source files
1037            * man/nsparseMatrix-classes.Rd, etc: new help files
1038            * tests/: adaptions
1039            * src/chm_common.c (chm_dense_to_SEXP): and others:
1040                    new 'Rkind' argument: "l*" and "d*" both use CHOLMOD_REAL
1041            * src/Csparse.c, etc: ditto
1042    
1043    2006-09-11  Douglas Bates  <bates@R-project.org>
1044    
1045            * src/Mutils.[ch],init.c inst/include/*.h: Move the
1046            alloc_d**Matrix functions to the lme4 package.
1047    
1048    2006-09-09  Douglas Bates  <bates@R-project.org>
1049    
1050            * src/dsCMatrix.c (dsCMatrix_Cholesky): igoring LDL = FALSE now
1051            fixed
1052    
1053    2006-09-09  Martin Maechler  <maechler@stat.math.ethz.ch>
1054    
1055            * R/lMatrix.R: new
1056    
1057            * R/sparseMatrix.R (Tsp2grNEL): do not yet use graph::foo()
1058    
1059            * R/dgeMatrix.R: do not define tcrossprod() methods for "matrix"
1060            * man/tcrossprod.Rd: ditto
1061    
1062    2006-09-08  Douglas Bates  <bates@stat.wisc.edu>
1063    
1064            * inst/include/Matrix_stubs.c,Matrix.h: Add declarations and stubs
1065            for exported functions
1066            * src/Makefile, src/CHOLMOD/Lib/Makefile, src/Metis,CAMD,CCOLAMD:
1067            Remove partitioning algorithms for sparse matrix reordering.  The
1068            copyright on the Metis code was problematic and the methods were
1069            rarely used.
1070            * src/triplet_to_col.[ch],MMHB.[ch]: Remove triplet_to_col.  Such
1071            operations are now done entirely in CHOLMOD code.
1072    
1073    2006-09-06  Douglas Bates  <bates@R-project.org>
1074    
1075            * src/Mutils.h: Remove functions that are no longer used.
1076    
1077  2006-09-04  Douglas Bates  <bates@R-project.org>  2006-09-04  Douglas Bates  <bates@R-project.org>
1078    
1079          * src/dtCMatrix.c (dtCMatrix_validate): rename functions.          * src/dtCMatrix.c (dtCMatrix_validate): rename functions.
# Line 24  Line 1100 
1100    
1101          * R/sparseMatrix.R (Arith): moved Arith group method one-level up          * R/sparseMatrix.R (Arith): moved Arith group method one-level up
1102          from "dsparse" to "sparse" and now go via "Csparse" instead of "dgC"          from "dsparse" to "sparse" and now go via "Csparse" instead of "dgC"
1103          * R/dsparseMatrix.R: dito          * R/dsparseMatrix.R: ditto
1104          * R/Csparse.R: dito          * R/Csparse.R: ditto
1105    
1106  2006-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
1107    
# Line 41  Line 1117 
1117    
1118          * R/Auxiliaries.R (all0, is0): for 0-testing in presence of NA's          * R/Auxiliaries.R (all0, is0): for 0-testing in presence of NA's
1119          * R/Auxiliaries.R (isTriMat): use all0() for 0-testing.          * R/Auxiliaries.R (isTriMat): use all0() for 0-testing.
1120          (.is.diagonal): dito          (.is.diagonal): ditto
1121    
1122          * R/lgTMatrix.R: as("matrix", "lgTMatrix"): warn about NA's          * R/lgTMatrix.R: as("matrix", "lgTMatrix"): warn about NA's
1123    

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