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revision 1682, Fri Dec 1 18:42:40 2006 UTC revision 2154, Sat Mar 22 21:23:12 2008 UTC
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1    2008-03-22  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * src/dsCMatrix.c (dsCMatrix_LDL_D): cleanup, also using
4            internal_chm_factor().
5    
6            * R/AllGeneric.R: do *not* define a "chol" generic
7                    (but rather use the implicit one *without* making pivot
8                    part of the signature)
9            * R/*.R: drop the 'pivot' from chol's signature and make
10                    'pivot=FALSE' a default argument of method definitions.
11    
12            * .Rbuildignore: add 'wrld_1deg': I.e. do not put it into released
13            version of Matrix
14    
15    2008-03-18  Martin Maechler  <maechler@stat.math.ethz.ch>
16    
17            * R/Tsparse.R (.T.2.n): drop 0's before coercion to "nMatrix"
18    
19            * R/sparseMatrix.R (is.na): new simple method
20            * R/denseMatrix.R (is.na): ditto.
21    
22            * R/diagMatrix.R (.symDiagonal): newly exported utility.
23    
24            * R/diagMatrix.R (Ops): <diag> * <numeric> should not become dgeMatrix!
25    
26            * src/UFsparse_download.sh: -->
27            * src/CHOLMOD/: update to CHOLMOD version 1.6 (Nov.2007)
28    
29    2008-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
30    
31            * src/dsCMatrix.c (dsCMatrix_LDL_D): even faster utility with same
32            functionality; barely tested in
33            * tests/factorizing.R
34    
35            * src/Csparse.c (diag_tC): new functionality to enable faster
36            determinant(<dsCMatrix>, .) in
37            * R/dsCMatrix.R
38    
39    2008-03-17 18:53  Douglas Bates <bates@stat.wisc.edu>
40    
41            * R/CHMfactor.R, inst/include/Matrix.h, inst/include/Matrix_stubs.c,
42              src/CHMfactor.c, src/CHMfactor.h,
43              man/CHMfactor-class.Rd, src/init.c, tests/factorizing.R:
44              Log-determinant of the parent matrix from a CHMfactor object as
45              chm_factor_ldetL2; documentation and support
46    
47    2008-03-15  Martin Maechler  <maechler@stat.math.ethz.ch>
48    
49            * R/dsCMatrix.R: enable determinant(<dsCMatrix>, .) via chol(.)
50    
51    2008-03-14  Martin Maechler  <maechler@stat.math.ethz.ch>
52    
53            * R/dsCMatrix.R: setAs(., "dsCMatrix") but with a deprecation
54            warning.
55    
56    2008-03-13  Martin Maechler  <maechler@stat.math.ethz.ch>
57    
58            * DESCRIPTION (Version, Date): bug-fix release 0.999375-6
59    
60            * R/diagMatrix.R (diag2tT.u): utility to be smarter in
61              <diagonal> o <sparse_triangular>
62              setAs(., "nMatrix") added.
63    
64            * R/diagMatrix.R (Diagonal): Diagonal(4, x=3) now works too
65    
66            * R/Auxiliaries.R (.diagU2N): more careful coercion in 2 steps
67                    new argument 'checkDense = FALSE'.
68    
69    
70    2008-03-07  Martin Maechler  <maechler@stat.math.ethz.ch>
71    
72            * src/dgeMatrix.c (dgeMatrix_exp): fix the octave-origin bug in the
73            back-permutation of the matrix exponential.
74    
75            * tests/matr-exp.R: test the fix (for an example where expm() was wrong).
76    
77            * DESCRIPTION (Date,Version): ready to release 0.999375-5
78    
79            * tests/simple.R: testing diagN2U
80    
81    2008-03-06  Martin Maechler  <maechler@stat.math.ethz.ch>
82    
83            * R/Auxiliaries.R (diagN2U): interface to
84    
85            * src/Csparse.c (Csparse_diagN2U): .Call()able SEXP version of chm_diagN2U()
86    
87            * tests/matprod.R: test for triangularity preserving <dtC> %*% <dtC>
88    
89    2008-03-05  Martin Maechler  <maechler@stat.math.ethz.ch>
90    
91            * src/chm_common.c (chm_diagN2U): new utility.
92    
93            * src/Csparse.c (Csparse_Csparse_crossprod, Csparse_Csparse_prod):
94            make use of chm_diagN2U() and hence now preserve triangularity and
95            unit-triangularity.
96    
97            * DESCRIPTION (LicenseDetails): new; such that 'License:' becomes "canonical"
98    
99    2008-03-04  Martin Maechler  <maechler@stat.math.ethz.ch>
100    
101            * R/diagMatrix.R (subDiag): fix when x[..] became a vector
102    
103            * src/Tsparse.c (Tsparse_diagU2N): new utility, necessary for e.g.
104            * src/Csparse.c (Csparse_crossprod): use [CT]sparse_diagU2N() !!
105    
106            * R/Auxiliaries.R (.diagU2N): make use of new Tsparse_diagU2N
107    
108            * R/Ops.R ("-" (<sparseMatrix>)): use diagU2N()
109    
110            * src/chm_common.c (AS_CHM_FINISH): add note about problem
111            for triangular (diag = "U").
112    
113    2008-02-21  Martin Maechler  <maechler@stat.math.ethz.ch>
114    
115            * R/Auxiliaries.R (as_Csparse2): drop this, replacing by
116            * R/bind.R:  .Call(dense_to_Csparse, *)
117    
118    2008-02-20  Martin Maechler  <maechler@stat.math.ethz.ch>
119    
120            * R/Matrix.R (Matrix): no longer use coercions to specific classes
121                    (since we are discouraging them in user code).
122    
123            * tests/*.R: also replaces coercions to specific classes by
124            coercions to super classes.
125    
126            * R/denseMatrix.R (.dense2C): simplified by using forceSymmetric()
127    
128    
129    2008-02-19  Martin Maechler  <maechler@stat.math.ethz.ch>
130    
131            * man/CAex.Rd: example: coerce to symmetric*, not dsC*
132    
133            * src/dense.c (dense_band): generalized from ddense_band
134    
135            * R/ddenseMatrix.R (.trilDense,.triuDense, .bandDense):
136              now for "denseMatrix" (instead of just "ddense*"); much
137              simplified setMethod()s for these.
138    
139            * src/dense.c (dense_to_symmetric): generalized from ddense_*
140    
141    2008-02-18  Martin Maechler  <maechler@stat.math.ethz.ch>
142    
143            * R/AllGeneric.R: forceSymmetric() generic: fast no-checking
144            version of as(*, "symmetricMatric").
145    
146            * src/dense.c (ddense_to_symmetric): add 'symm_test' argument, and
147            * R/symmetricMatrix.R: set it TRUE in coercion to "symmetricMatrix"
148    
149    2008-02-16  Martin Maechler  <maechler@stat.math.ethz.ch>
150    
151            * R/Matrix.R (subset.ij): utility, as first step to faster
152               M [ <ij-matrix> ] indexing.
153    
154            * R/Matrix.R (.M.sub.i.logical): M[ <logical> ] : try better.
155    
156            * src/dense.c (ddense_symmpart, ddense_skewpart): new functions
157            for more efficient symmpart() and skewpart() methods.
158    
159            * src/Mutils.c (equal_string_vectors): utility
160    
161            * src/dense.c (ddense_to_symmetric): new function used in
162    
163            * R/symmetricMatrix.R: setAs(., "symmetricMatrix")
164    
165            * R/sparseMatrix.R, et_al (isSymmetric): add '...' to formals, in
166            order to match the generic (and evade .local(..)).
167    
168            * R/dsCMatrix.R: dgC -> dsC: use C code!
169    
170            * NAMESPACE, R/AllGeneric.R (symmpart, skewpart): new functions
171            as per TODO
172    
173            * R/Auxiliaries.R (setZero, all0Matrix): new utilities
174    
175            * R/symmetricMatrix.R: obvious symmpart(), skewpart() methods
176    
177    
178    2008-02-15  Martin Maechler  <maechler@stat.math.ethz.ch>
179    
180            * R/Ops.R (.Arith.Csparse): use diagU2N when needed in triangular
181    
182            * R/Auxiliaries.R (non0.i): take out of non0ind
183    
184            * R/ddenseMatrix.R (.trilDense, .triuDense, .bandDense):
185            make tril(), triu(), band() work for "matrix" and all "dense*"
186    
187            * R/triangularMatrix.R (.tri[lu].tr): need .diagU2N(*)
188            * tests/simple.R: test the fix above
189    
190            * R/sparseMatrix.R ([): simplification: no coerce to <general>
191                    before we use as(., <Tsparse>)[...] anyway
192    
193            * R/Rsparse.R (.viaC.to.R): mostly instead of .viaC.to.dgR()
194    
195            * R/triangularMatrix.R (isTriangular): methods for all subclasses
196            instead of "triangularMatrix" -- just to disambiguate
197    
198    2008-02-14  Martin Maechler  <maechler@stat.math.ethz.ch>
199    
200            * tests/Class+Meth.R (dotestMat): add m[FALSE, FALSE] { <-> TODO}
201            * tests/indexing.R: example that fails above
202    
203    2008-01-26  Martin Maechler  <maechler@stat.math.ethz.ch>
204    
205            * R/Matrix.R (.M.sub.i.2col): fix for logical matrix indexing
206            * R/Tsparse.R (.TM.sub.i.2col, .TM.repl.i.2col): ditto;
207                    now, M[lower.tri(M)] and  M[lower.tri(M)] <- v  work better
208    
209            * src/Tsparse.c (Tsparse_to_tCsparse): new fast utility.
210            * src/Tsparse.h, init.c: ditto
211            * R/Auxiliaries.R (isTriT): new; faster than going via Csparse
212                 both isTriC() and isTriT() now return TRUE with "kind" or FALSE.
213            * R/sparseMatrix.R (isTriangular): hence simplified
214    
215    2008-01-24  Martin Maechler  <maechler@stat.math.ethz.ch>
216    
217            * R/Ops.R (.Arith.Csparse): new utility factored out of former
218              <dgC> o <dgC>, extended for triangular and also used in  <dtC> o <dtC>.
219    
220    2008-01-23  Martin Maechler  <maechler@stat.math.ethz.ch>
221    
222            * tests/factorizing.R (checkSchur): and more tests for checking Schur()
223    
224            * inst/test-tools.R (isOrthogonal): new function; also file restructured
225    
226    2008-01-22  Martin Maechler  <maechler@stat.math.ethz.ch>
227    
228            * R/ngTMatrix.R: allow as(<numeric matrix>, "ngTMatrix") and hence
229            coercion to "nMatrix" and "pMatrix"
230    
231            * R/AllClass.R: "Schur" class;  "number" class union
232            * man/number-class.Rd:
233            * man/Schur-class.Rd:
234    
235            * R/eigen.R (.dgeSchur): utility, and return "Schur" class
236            (.simpleSchur): Schur() method for diagonal matrices
237            (.triSchur):    Schur() method for triangular matrices
238            (Schur.sym):    Schur() for symmetric matrices {building on eigen()}.
239    
240    
241    2008-01-21  Martin Maechler  <maechler@stat.math.ethz.ch>
242    
243            * src/dgCMatrix.c (dgCMatrix_QR): set @Dim slot (as per doc)
244    
245    2008-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
246    
247            * R/CHMfactor.R (solve): method for b="numeric", but also b="ANY"
248                    in order to ensure 'system = *' is not lost;
249                    formals()$system instead of cut&paste.
250            * tests/factorizing.R: test solve(<CHM..>, <numeric>)
251    
252    2008-01-11  Martin Maechler  <maechler@stat.math.ethz.ch>
253    
254            * DESCRIPTION (Date): make ready for release --> 0.999375-4
255    
256            * R/dgeMatrix.R: fix rcond() method for "dgeMatrix".
257    
258    2007-12-08  Martin Maechler  <maechler@stat.math.ethz.ch>
259    
260            * R/pMatrix.R: as(*, "matrix") now returns 0/1 *integer* matrix,
261                    and hence does as.vector(.).
262            * man/pMatrix-class.Rd: docs
263            * R/sparseMatrix.R: fix for printing "integer sparse"
264    
265            * tests/Class+Meth.R (tstMatrixClass): test M[FALSE], M[2] etc
266    
267            * R/Matrix.R and others: use "exact" function argument list for
268                    both "["   : (x, i,j, ..., drop)
269                    and  "[<-" : (x, i,j, ..., value)
270    
271            * R/denseMatrix.R: M[i] and M[i] <- v  (i vector) now work
272            * R/Tsparse.R (replTmat):    ditto
273            * R/diagMatrix.R (replDiag): ditto
274            * R/Csparse.R (replCmat):    ditto {was it worth the pain?}
275            * tests/indexing.R: testing the above
276    
277    2007-12-07  Martin Maechler  <maechler@stat.math.ethz.ch>
278    
279            * R/sparseMatrix.R (cov2cor): method for sparse matrices
280    
281            * R/diagMatrix.R ([<-): fix   D[ cbind(i,j) ] <- v
282    
283            * R/bind2.R: fix for Rsparse* and rbind2(dense,dense)
284    
285            * tests/Class+Meth.R: test cbind2, rbind2  and  diag<-
286    
287    2007-12-06  Martin Maechler  <maechler@stat.math.ethz.ch>
288    
289            * R/Matrix.R: "generic" cov2cor() method
290    
291            * R/nearPD.R: new 'only.values', 'keepDiag' arguments;
292                    speed up Q %*% D %*% t(Q)
293            * tests/dpoMatrix.R: test nearPD()
294    
295    2007-12-05  Doug Bates and Martin Maechler
296    
297            * R/sparseMatrix.R: xtabs(*, sparse=.) function; an extention of
298            stats::xtabs() allowing to create sparse matrices.
299    
300    2007-10-08  Martin Maechler  <maechler@stat.math.ethz.ch>
301    
302            * DESCRIPTION (Version): *-4 (released *-3 two days ago)
303    
304    2007-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
305    
306            * R/pMatrix.R: solve(<Matrix>, <pMatrix>)
307    
308    2007-10-05  Martin Maechler  <maechler@stat.math.ethz.ch>
309    
310            * R/LU.R: solve() method for "denseLU"
311    
312    2007-10-01  Martin Maechler  <maechler@stat.math.ethz.ch>
313    
314            * DESCRIPTION (Version): 0.999375-3 preparing for release
315    
316            * R/AllGeneric.R: simplify  if(.) .. else .. for R <= 2.5.1
317    
318            * R/Matrix.R (Matrix): .Internal(matrix(..)) different for R >= 2.7.0
319    
320    2007-09-26  Martin Maechler  <maechler@stat.math.ethz.ch>
321    
322            * R/pMatrix.R (.m.mult.pMat): fix <matrix> %*% <pMatrix>,
323              thanks to Kasper Kristensen.
324            * tests/matprod.R: regression test for that.
325    
326    2007-09-23 17:32  Douglas Bates <bates@stat.wisc.edu>
327    
328            * [r4778] R/AllGeneric.R: Check R version before defining generics for
329              primitives
330    
331    2007-09-13  Martin Maechler  <maechler@stat.math.ethz.ch>
332    
333            * R/denseMatrix.R (rcond): method
334            * R/sparseQR.R (rcond): method, use x or t(x)
335    
336    2007-09-12  Martin Maechler  <maechler@stat.math.ethz.ch>
337    
338            * R/dgeMatrix.R (rcond): method: work via qr.R() for non-square
339            matrices.
340            * R/sparseMatrix.R: Ditto for all other rcond() method definitions.
341    
342            * man/rcond.Rd: mention the more general definition, and add
343            example for non-square matrices.
344    
345            * man/chol.Rd: new file, for the S4 chol() generic and all methods.
346    
347    2007-09-11  Martin Maechler  <maechler@stat.math.ethz.ch>
348    
349            * R/sparseQR.R: add qr.R() method [to be used for rcond()]
350    
351    2007-09-01  Martin Maechler  <maechler@stat.math.ethz.ch>
352    
353            * R/Matrix.R ([<-): add (Matrix,missing,ANY,Matrix) etc
354            * tests/indexing.R: add new regression for the above cases.
355    
356    2007-08-30  Martin Maechler  <maechler@stat.math.ethz.ch>
357    
358            * src/Mutils.h (__sun): clause for alloca.h on Solaris
359    
360    2007-08-16  Martin Maechler  <maechler@stat.math.ethz.ch>
361    
362            * DESCRIPTION (Date, Version): 0.999375-2
363    
364    2007-08-15  Martin Maechler  <maechler@stat.math.ethz.ch>
365    
366            * R/HBMM.R (readMM): make work for pattern matrices as well
367    
368    2007-08-14 13:07  Douglas Bates <bates@stat.wisc.edu>
369    
370            * [r4730] src/Mutils.h: declare alloca
371            * [r4734] NAMESPACE, R/AllGeneric.R, R/Csparse.R, R/HBMM.R, R/Tsparse.R,
372              R/dgCMatrix.R, R/dgTMatrix.R, R/dsCMatrix.R, R/dsTMatrix.R,
373              man/externalFormats.Rd, src/Csparse.c, src/Csparse.h, src/DEPS.mkf,
374              src/HBMM.c, src/HBMM.h, src/Mutils.h, src/SOURCES_C.mkf, src/init.c,
375              src/mmio.c, src/mmio.h: Remove deprecated function writeHB and its
376              methods; switch writeMM to use CHOLMOD code; repair readMM
377    
378    2007-08-14  Martin Maechler  <maechler@stat.math.ethz.ch>
379    
380            * R/nearPD.R, man/nearPD.Rd (nearPD): new function built on Jens
381            Oehlschlaegel's ... result type still to be discussed!
382    
383    2007-08-10  Martin Maechler  <maechler@stat.math.ethz.ch>
384    
385            * man/image-methods.Rd: new, combining all image() methods
386    
387    2007-08-09  Martin Maechler  <maechler@stat.math.ethz.ch>
388    
389            * R/dgCMatrix.R: define qr() and lu() methods for "sparseMatrix"
390            to work via dgC...
391    
392            * R/Matrix.R (Matrix): special treatment for "table" (S3)
393    
394    2007-08-07  Martin Maechler  <maechler@stat.math.ethz.ch>
395    
396            * R/dgTMatrix.R (image): change defaults to
397                    aspect = "iso", colorkey = FALSE
398    
399    2007-08-06  Martin Maechler  <maechler@stat.math.ethz.ch>
400    
401            * src/dsyMatrix.c (dsyMatrix_matrix_mm): 'b' might be matrix;
402            must copy its *expanded* x slot before LAPACK call.
403    
404            * tests/matprod.R: test the last days' changes.
405    
406    2007-08-06 16:43  Douglas Bates <bates@stat.wisc.edu>
407    
408            * [r4712] inst/include/Matrix_stubs.c: Change R_cholmod_printf in stubs
409              as well as in sources
410            * [r4713] src/dsyMatrix.c: Duplicate the contents of the RHS before
411              Lapack call
412    
413    2007-08-03  Martin Maechler  <maechler@stat.math.ethz.ch>
414    
415            * R/Matrix.R (%*%, crossprod, tcrossprod): add method for
416                    ("Matrix", "matrix") which is needed in some cases.
417            Ditto for solve().
418    
419            * R/colSums.R (.as.dge.Fun): need ddenseMatrix methods to avoid
420            infinite recursion in dispatch for some cases.
421    
422    2007-08-02 08:48  Martin Maechler <maechler@stat.math.ethz.ch>
423    
424            * [r4693] src/chm_common.c: R_cholmod_printf() instead of Rprintf() just
425              so pointers match
426    
427    2007-08-02  Martin Maechler  <maechler@stat.math.ethz.ch>
428    
429            * DESCRIPTION (Date): set ready for release -- 0.999375-1
430    
431    2007-08-01 15:44  Douglas Bates <bates@stat.wisc.edu>
432    
433            * [r4686] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
434              src/chm_common.c, src/chm_common.h: Change API for
435              numeric_as_chm_dense and N_AS_CHM_DN
436    
437    2007-08-01  Martin Maechler  <maechler@stat.math.ethz.ch>
438    
439            * src/dtrMatrix.c (dtrMatrix_matrix_mm): fix dimensionality check (!)
440            * tests/matprod.R: regr.test for it
441    
442    2007-07-20  Martin Maechler  <maechler@stat.math.ethz.ch>
443    
444            * R/dMatrix.R: fix from Brian for   Math2(., digits = "missing")
445            * tests/group-methods.R: and regression-test it
446    
447    2007-07-19 19:45  Douglas Bates <bates@stat.wisc.edu>
448    
449            * [r4642] inst/include/Matrix.h, inst/include/Matrix_stubs.c,
450              inst/include/cholmod.h, src/chm_common.c, src/init.c: Export
451              triplet_to_sparse, documentation, use typedefs
452    
453    2007-07-18  Martin Maechler  <maechler@stat.math.ethz.ch>
454    
455            * man/dpoMatrix-class.Rd: added 'corMatrix' example
456    
457            * src/dsyMatrix.[ch] (dsyMatrix_as_matrix): new 'keep_dimnames' arg
458            * src/dtrMatrix.[ch] (dtrMatrix_as_matrix): ditto
459            * src/init.c, R/dsyMatrix.R, R/dtrMatrix.R, R/lgTMatrix.R: ditto
460    
461            * R/lsparseMatrix.R: bug fix in "all" method
462            * R/Ops.R (.do.Logic.lsparse): "|" bug in borderline case
463    
464            * R/dsyMatrix.R (coerce->dsTMatrix): (i,j) slots should *not* have names
465            * R/ngTMatrix.R (coerce->ngTMatrix): ditto;
466                    + matrix |-> nMatrix coercion
467            * R/pMatrix.R: + setAs()  to dMatrix and from nMatrix
468            * man/pMatrix-class.Rd: ditto
469    
470            * R/Matrix.R (Summary): method for non-dMatrix
471    
472            * tests/Class+Meth.R (extraValid): new check about "dirty" slots
473            * tests/Class+Meth.R (tstMatrixClass): test norm(.);
474                    test all Summary methods.
475    
476    2007-07-16  Martin Maechler  <maechler@stat.math.ethz.ch>
477    
478            * R/dgeMatrix.R (norm, rcond): methods for 'matrix'
479    
480    2007-07-14  Martin Maechler  <maechler@stat.math.ethz.ch>
481    
482            * R/sparseMatrix.R (norm): simple methods for sparseMatrix
483    
484            * R/pMatrix.R (t?crossprod): methods for pMatrix
485    
486    2007-07-10  Douglas Bates  <bates@stat.wisc.edu>
487    
488            * src/dgeMatrix.c (dgeMatrix_colsums): Get the logic straight.
489    
490    2007-07-09 20:45  Douglas Bates <bates@stat.wisc.edu>
491    
492            * [r4579] src/dgeMatrix.c: Untangle horrible code in dgeMatrix_colsums
493              trying to fix a subtle bug - which has been somewhere else.
494    
495    2007-07-09 19:43  Martin Maechler <maechler@stat.math.ethz.ch>
496    
497            * [r4578] src/dgeMatrix.c: "cleaned" dgeMatrix_colsums() - but did not
498              solve the bug
499    
500    2007-07-08  Martin Maechler  <maechler@stat.math.ethz.ch>
501    
502            * src/dgCMatrix.c (compressed_to_TMatrix):
503    
504    2007-07-07  Martin Maechler  <maechler@stat.math.ethz.ch>
505    
506            * src/Csparse.c (Rsparse_validate): new, to have some validity
507            checking for RsparseMatrix
508            * src/dgCMatrix.c (xRMatrix_validate): ditto
509            * src/dtCMatrix.c (tRMatrix_validate): ditto
510    
511    2007-07-07  Douglas Bates <bates@stat.wisc.edu>
512    
513            * [r4567] R/AllClass.R: Slots already in RsparseMatrix were redefined in
514              lgRMatrix
515            * [r4568] DESCRIPTION: Prepare for bug-fix release
516            * [r4570] src/CHOLMOD/Check/cholmod_write.c: Include cholmod_matrixops.h
517              for declaration of cholmod_symmetry
518    
519    2007-07-06  Martin Maechler  <maechler@stat.math.ethz.ch>
520    
521            * DESCRIPTION (Version): 0.999375 merged into the trunk; ready for
522            release.
523    
524    2007-07-06 14:11  Douglas Bates <bates@stat.wisc.edu>
525    
526            * [r4559] src/iohb.c, src/iohb.h: Remove Harwell-Boeing input/output
527              functions - no longer used
528            * [r4560] src/HBMM.c, src/Mutils.c, src/dgTMatrix.c, src/dgeMatrix.c,
529              src/dspMatrix.c, src/dsyMatrix.c, src/dtCMatrix.c,
530              src/factorizations.c, src/sparseQR.c: Replace most calls to Calloc by
531              Alloca
532    
533    2007-07-06 13:14  Martin Maechler <maechler@stat.math.ethz.ch>
534    
535            * [r4558] inst/doc/Comparisons.Rnw, src/CHMfactor.c, src/Csparse.c,
536              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dense.c,
537              src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c, src/sparseQR.c,
538              src/t_gCMatrix_colSums.c: more R_CheckStack()s
539    
540    2007-07-05 18:12  Douglas Bates <bates@stat.wisc.edu>
541    
542            * [r4550] inst/include/Matrix.h: Add the macro N_AS_CHM_DN to "alloca"
543              the required amount of memory then call M_numeric_as_chm_dense.
544            * [r4556] src/Mutils.h, src/dgCMatrix.c: Define and use the Alloca macro
545              (like Calloc but calling alloca)
546    
547    2007-07-05  Martin Maechler  <maechler@stat.math.ethz.ch>
548    
549            * R/sparseMatrix.R (printSpMatrix): renamed from prSpMatrix()
550            and extended with more sophisticated 'col.names' option.
551            * NAMESPACE: export  printSparseMatrix()
552            * man/printSpMatrix.Rd: document, incl. examples
553    
554    2007-07-04 16:21  Douglas Bates <bates@stat.wisc.edu>
555    
556            * [r4543] src/cs_utils.c, src/cs_utils.h, src/dgCMatrix.c,
557              src/dtCMatrix.c, src/sparseQR.c: CSP typedef for *cs and macro
558              AS_CSP. API change - pass the empty structure to Matrix_as_cs.
559    
560    2007-07-04  Martin Maechler  <maechler@stat.math.ethz.ch>
561    
562            * DESCRIPTION (Version): 0.99875-4
563    
564            * tests/Class+Meth.R (tstMatrixClass): add dimnames, and hence test
565            some dimnames perservation.
566    
567            * R/dsTMatrix.R (t-method): keep dimnames
568            * R/dtTMatrix.R:  ditto
569    
570            * R/sparseMatrix.R (prSpMatrix): print colnames when non-trivial
571            and ncol(.) < 10
572    
573            * src/cs_utils.c: drop check_class() and use Matrix_check_class()
574            from Mutils.h
575    
576            * src/lgCMatrix.c ([ln]csc_to_matrix): no longer lose dimnames,
577            e.g. in as(<ngCMatrix>, "matrix")
578    
579    2007-07-01 13:27  Douglas Bates <bates@stat.wisc.edu>
580    
581            * [r4529] .: Create a branch for the API changes from the 0.99875
582              series to the 0.999375 series
583            * [r4530] DESCRIPTION, inst/include/Matrix.h,
584              inst/include/Matrix_stubs.c, src/CHMfactor.c, src/Csparse.c,
585              src/Mutils.h, src/Tsparse.c, src/chm_common.c, src/chm_common.h,
586              src/dense.c, src/dgCMatrix.c, src/dsCMatrix.c, src/dtTMatrix.c,
587              src/t_gCMatrix_colSums.c: API change - pass the empty structure to the
588              as_cholmod_x functions
589    
590    2007-06-30 09:05  Martin Maechler <maechler@stat.math.ethz.ch>
591    
592            * [r4527] trunk/Matrix/DESCRIPTION, trunk/Matrix/NAMESPACE,
593              trunk/Matrix/inst/doc/Comparisons.Rnw: add session- and hardware-info
594              to Comparisons
595    
596    >>>>>>> .merge-right.r4561
597    2007-06-29  Martin Maechler  <maechler@stat.math.ethz.ch>
598    
599            * DESCRIPTION (Version): 0.99875-3 ready to be released.
600    
601            * R/sparseMatrix.R (spMatrix): make spMatrix(3,4) working
602    
603            * R/AllGeneric.R: set "Math" (and "Math2") group generics in a way
604            that should also work in a future version of R.
605    
606    2007-06-21  Martin Maechler  <maechler@stat.math.ethz.ch>
607    
608            * NAMESPACE, R/AllClass.R: "xsparseVector" class union.
609    
610            * R/sparseVector.R: more *sparseVector coercions, notably for
611            non - double ones.
612    
613    2007-06-19  Martin Maechler  <maechler@stat.math.ethz.ch>
614    
615            * R/colSums.R: new file for all (col|row)(Sums|Means) methods,
616              notably the new ones building on the new .Call(.)s:
617    
618            * src/dgCMatrix.c (DEF_gCMatrix_COLSUMS): use to define
619            all 4 of [dlin]gCMatrix_colSums().
620    
621    2007-06-18 16:12  Douglas Bates <bates@stat.wisc.edu>
622    
623            * [r4472] src/Syms.h, src/init.c: Added Matrix_lengthSym
624            * [r4473] src/dgCMatrix.c: Modified dgCMatrix_colSums for sparseVector
625              result
626    
627    2007-06-16  Martin Maechler  <maechler@stat.math.ethz.ch>
628    
629            * R/kronecker.R: fix typo (could lead to inf.recursion)
630            * test/simple.R: testing that
631    
632            * R/sparseMatrix.R (prSpMatrix): change to be used as print()
633            method as well (which can have arguments, show() can't).
634    
635    2007-06-16 15:52  Douglas Bates <bates@stat.wisc.edu>
636    
637            * [r4466] R/dgCMatrix.R, src/dgCMatrix.c, src/dgCMatrix.h, src/init.c:
638              added dgCMatrix_colSums for [col,row][Sums,Means]
639    
640    2007-06-15 23:15  Douglas Bates <bates@stat.wisc.edu>
641    
642            * [r4460] R/sparseMatrix.R, man/dgCMatrix-class.Rd, src/dgCMatrix.c,
643              src/dgCMatrix.h, src/init.c: added lm.fit.sparse (unexported),
644              coercion of "factor" to "dgCMatrix" and dgCMatrix_cholsol
645            * [r4461] R/AllClass.R, man/sparseMatrix-class.Rd: draft "indicators"
646              class
647            * [r4463] R/sparseMatrix.R, man/dgCMatrix-class.Rd,
648              man/sparseMatrix-class.Rd: Don't need an "indicators" class - use the
649              row names to store the levels - duh!  Added an example.
650    
651    2007-06-14  Martin Maechler  <maechler@stat.math.ethz.ch>
652    
653            * src/Csparse.c (Csparse_validate): check for *repeated* entries
654            thanks to example from Christian Buchta; with a test here:
655            * tests/simple.R:
656    
657    2007-06-07  Martin Maechler  <maechler@stat.math.ethz.ch>
658    
659            * R/Auxiliaries.R (callGeneric): another fix, needed for some cases
660            of colSums(*, sparseResult = TRUE)
661    
662    2007-06-06  Martin Maechler  <maechler@stat.math.ethz.ch>
663    
664            * R/lsparseMatrix.R, R/ldenseMatrix.R (all, any): change default to
665            'na.rm = FALSE' as "everywhere" else in R.
666    
667    2007-06-05 Douglas Bates <bates@stat.wisc.edu>
668    
669            * [r4421] src/CSparse_install.sh: Modify for new organization of
670              CSparse package
671            * [r4425] src/UFsparse_download.sh: Update to version 3.0.0 of
672              SuiteSparse
673            * [r4426] src/Makefile: add ./UFconfig to the include path for
674              compilation
675            * [r4427] src/cs.[ch]: update to CSparse version 2.2.0
676            * [r4428] inst/doc/UFsparse/* src/{AMD,CHOLMOD,COLAMD}/*
677              src/UFconfig/UFconfig.h: Update to version 3.0.0 of SuiteSparse
678    
679    2007-06-05  Martin Maechler  <maechler@stat.math.ethz.ch>
680    
681            * R/Auxiliaries.R (emptyColnames): + argument msg.if.not.empty, used in
682            * R/sparseMatrix.R (prSpMatrix): now gives a message about
683            suppressed column names.
684    
685    2007-06-04 17:13  Douglas Bates <bates@stat.wisc.edu>
686    
687            * [r4418] src/Csparse.c, src/HBMM.c, src/Mutils.c, src/Mutils.h,
688              src/Tsparse.c, src/chm_common.c, src/chm_common.h, src/dgCMatrix.c,
689              src/dgeMatrix.c, src/dpoMatrix.c, src/dpoMatrix.h, src/dppMatrix.c,
690              src/dppMatrix.h, src/dsCMatrix.c, src/dspMatrix.c, src/dspMatrix.h,
691              src/dsyMatrix.c, src/dsyMatrix.h, src/dtpMatrix.c, src/dtrMatrix.c:
692              Remove warnings after change to const char* CHAR
693    
694    2007-06-04 17:11  Douglas Bates <bates@stat.wisc.edu>
695    
696            * [r4417] inst/include/Matrix_stubs.c, inst/include/cholmod.h: Corrected
697              type of M_cholmod_ssmult
698    
699    2007-06-03 14:42  Douglas Bates <bates@stat.wisc.edu>
700    
701            * [r4412] inst/include/Matrix_stubs.c, inst/include/cholmod.h,
702              src/init.c: Yet another cholmod export - cholmod_ssmult
703    
704    2007-05-23  Martin Maechler  <maechler@stat.math.ethz.ch>
705    
706            * NAMESPACE: exported drop0(), since
707            * man/drop0.Rd: I have seen several cases, I really wanted to use
708            it, so our users may want too.
709    
710    2007-05-22  Martin Maechler  <maechler@stat.math.ethz.ch>
711    
712            * man/colSums.Rd: separately document colSums() etc, since these
713            have the extra argument 'sparseResult'.
714    
715    2007-05-21  Martin Maechler  <maechler@stat.math.ethz.ch>
716    
717            * R/sparseMatrix.R (spMatrix): utility (T)sparse Matrix constructor;
718            * man/spMatrix.Rd: docu., including examples
719    
720            * R/Auxiliaries.R (sp.colMeans): etc, using a patched callGeneric(),
721            in order to make colMeans() etc fast *and* correct.
722            * R/sparseVector.R (replSPvec): "[<-" functionality for
723            sparseVectors; tested in
724            * tests/simple.R:
725    
726    2007-05-19  Martin Maechler  <maechler@stat.math.ethz.ch>
727    
728            * R/sparseMatrix.R (print.sparseSummary): and summary() method for
729            (very) sparse Matrices; output similar to Matlab's print().
730    
731    2007-05-17  Douglas Bates  <bates@stat.wisc.edu>
732    
733            * src/HBMM.c (Matrix_writeMatrixMarket): Write 1-based, not
734            0-based, indices (Jose Quesada <quesada@gmail.com>).
735    
736    2007-05-16  Douglas Bates  <bates@stat.wisc.edu>
737    
738            * R/CHMfactor.R: Added solve methods for a CHMfactor object.
739    
740    2007-05-16  Martin Maechler  <maechler@stat.math.ethz.ch>
741    
742            * R/Auxiliaries.R (sparsapply): new utility, much faster than
743            tapply1() for large sparse matrices.
744    
745    2007-05-15  Martin Maechler  <maechler@stat.math.ethz.ch>
746    
747            * R/Matrix.R (dim<-): reshape now via sparseVector.
748    
749            * R/sparseVector.R: methods and function for
750            * R/AllClass.R: new "sparseVector" class and daughters.
751            * NAMESPACE: export new classes
752    
753    2007-05-14  Martin Maechler  <maechler@stat.math.ethz.ch>
754    
755            * DESCRIPTION (Version): 0.99875-1
756            * src/Makefile.win: also remove Lapack code from here (cf. 04-25).
757    
758    2007-05-11  Martin Maechler  <maechler@stat.math.ethz.ch>
759    
760            * R/Tsparse.R ([, Tsparse): fix last case: *duplicated*, symmetric
761            indexing
762            * tests/indexing.R: test set for that.
763    
764    2007-05-08  Martin Maechler  <maechler@stat.math.ethz.ch>
765    
766            * R/Tsparse.R (replTmat): fix the case of *duplicated* index
767            entries.
768            * tests/indexing.R(out): add regression test for it
769    
770    2007-04-30  Martin Maechler  <maechler@stat.math.ethz.ch>
771    
772            * R/(l(dense|sparse))?Matrix.R (!): use 'x', not 'e1' as argument
773            name for "!" method definitions.
774    
775    2007-04-26  Martin Maechler  <maechler@stat.math.ethz.ch>
776    
777            * R/Tsparse.R (intI): new utility, used for "[" :
778                    Cleanup up there, and fixes for duplicated indices - more TODO!
779    
780            * tests/indexing.R(out): more tests
781    
782    2007-04-25  Douglas Bates  <bates@stat.wisc.edu>
783    
784            * DESCRIPTION,src/Makefile: require R>= 2.5.0 and remove Lapack
785            code that is now part of the R Lapack library.
786    
787            * src/init.c,inst/include/{Matrix_stubs.c,cholmod.h}:export
788            cholmod_factorize_p (used in lme4 for GLMMs and NLMMs).
789    
790    2007-04-21  Martin Maechler  <maechler@stat.math.ethz.ch>
791    
792            * R/Matrix.R (image): method for all Matrices, not just sparse ones.
793    
794    2007-04-17  Martin Maechler  <maechler@stat.math.ethz.ch>
795    
796            * R/Auxiliaries.R (tapply1): unname(.) -> colSums() etc don't end
797            up with extraneous names '0'...'<n-1>'
798    
799    2007-04-12  Martin Maechler  <maechler@stat.math.ethz.ch>
800    
801            * R/dgTMatrix.R (mat2dgT): care about NAs
802    
803    2007-04-11  Martin Maechler  <maechler@stat.math.ethz.ch>
804    
805            * R/kronecker.R: triangularity preserving methods
806    
807    2007-03-27  Martin Maechler  <maechler@stat.math.ethz.ch>
808    
809            * R/kronecker.R: new file collecting kronecker() methods in one
810                    place.  Goal: become much faster!
811    
812    2007-03-23  Martin Maechler  <maechler@stat.math.ethz.ch>
813    
814            * src/dtCMatrix.c (dtCMatrix_solve): use the new code from Kasper
815            Kristensen based cs_spsolve() instead of _lsolve & _usolve which
816            can be much faster.
817    
818            * tests/matprod.R: add regression tests for these (upper & lower).
819    
820    2007-03-19  Martin Maechler  <maechler@stat.math.ethz.ch>
821    
822            * R/Matrix.R (diff): method for our Matrices.
823    
824            * R/sparseMatrix.R (isDiagonal): check dim()!
825    
826    2007-03-17  Martin Maechler  <maechler@stat.math.ethz.ch>
827    
828            * R/Matrix.R (dim<-): new method for "reshape()" built on a
829            proposal from Tamas Papp.
830    
831    2007-03-16  Martin Maechler  <maechler@stat.math.ethz.ch>
832    
833            * R/AllGeneric.R: remove all  if(!isGeneric(.))  clauses
834    
835            * R/zzz.R (.onLoad, .onUnload): do *not* leave bind_activation(TRUE);
836            rather define and export  cBind() and rBind() only.
837            --> useRs *must* change code that used to have cbind()/rbind() !!
838    
839            * R/bind.R: change tests from cbind() to cBind() and similarly to rBind()
840            * R/bind.Rout.save: ditto
841    
842    2007-02-16  Douglas Bates  <bates@r-project.org>
843    
844            * DESCRIPTION (Date, Version): 0.9975-11 with new date
845            * src/dgCMatrix.c (R_to_CMatrix, compressed_to_TMatrix): remove
846            const modifier on declaration of the array 'valid'
847    
848    2007-02-12  Douglas Bates  <bates@stat.wisc.edu>
849    
850            * R/CHMfactor.R: Add image method (coercion to sparseMatrix).
851    
852    2007-02-05  Martin Maechler  <maechler@stat.math.ethz.ch>
853    
854            * DESCRIPTION (Date, Version): 0.9975-10 with new date.
855    
856            * R/Ops.R (Arith): make sure Csparse o Csparse also works for e.g. ntCMatrix
857            * tests/simple.R: test the above and some of these coercions:
858    
859            * R/nsparseMatrix.R: coercing "Csparse" to "lsparseMatrix";
860                    be careful to avoid infinite recursion, using new coercions in
861            * R/ngCMatrix.R and nsC... and ntC...
862            * R/lsparseMatrix.R: ditto
863    
864            * R/SparseM-conv.R: more conversion, notably for triplet matrices.
865    
866            * src/dgCMatrix.c (R_to_C_Matrix): port Doug's fix and
867            * R/Rsparse.R: reactivate .Call()s
868    
869            * tests/Class+Meth.R: a bit more on actual classes
870    
871    2007-02-04  Douglas Bates  <bates@stat.wisc.edu>
872    
873            * src/dgCMatrix.c (compressed_to_TMatrix): fix memory bug using strdup()
874    
875    2007-02-03  Martin Maechler  <maechler@stat.math.ethz.ch>
876    
877            * DESCRIPTION (Version): 0.9975-10 to upload
878    
879            * tests/Class+Meth.R (tstMatrixClass): require coercions to
880            specific classes less unconditionally.
881    
882            * R/Auxiliaries.R: get rid of as_Tsparse() and as_Rsparse()
883    
884            * R/Tsparse.R (triu): etc, use as(*, "TsparseMatrix") instead of as_Tsparse()
885    
886            * R/Rsparse.R (.R.2.T): R-level workaround using compressed_to_TMatrix.
887            * R/Rsparse.R (.R.2.C): R-level workaround since C-level
888            R_to_CMatrix segfaults on one platform.
889            Eliminate most coercion method to *specific* classes, and replace
890            with virtual classes coercions.
891    
892    
893    2007-02-01  Martin Maechler <maechler@stat.math.ethz.ch>
894    
895            * src/init.c: export the CHM...._validate() placeholders, since
896            they *are* called.
897    
898            * tests/Class+Meth.R (classCanCoerce): and starting to test
899            all as(<from>, <to>)
900    
901    2007-01-30  Martin Maechler  <maechler@stat.math.ethz.ch>
902    
903            * R/Tsparse.R ([): more care when subsetting triangular Tsparse
904            * tests/indexing.R: tested now
905            * tests/indexing.Rout.save: updated
906    
907            * src/Csparse.c (Csparse_to_dense): use Rkind = -1 for PATTERN to
908            * src/chm_common.c (chm_dense_to_SEXP): return "ngeMatrix" when
909            appropriate.
910    
911            * NAMESPACE: export a trivial
912            * R/Matrix.R: drop() Matrix-method
913    
914            * R/AllClass.R: moved all prototypes to virtual super classes.
915    
916            * R/Rsparse.R: many more coercions to have less exceptions in
917            * tests/Class+Meth.R:
918    
919            * R/Ops.R (Compare): tweak for case with NA
920            * tests/simpl.R: hence another 'FIXME' eliminated
921    
922    2007-01-29  Martin Maechler  <maechler@stat.math.ethz.ch>
923    
924            * R/diagMatrix.R (solve): the obvious methods for diagonalMatrix
925            objects.
926    
927            * tests/Class+Meth.R (tstMatrixClass): now testing diag(), nnzero(),
928              and more of "!", "&", "|", all, any; coercions
929    
930            * R/Rsparse.R: many coercions (which enable quite a few other
931            methods), thanks to enhancements in
932            * src/dgCMatrix.c (R_to_CMatrix): new, and
933            * src/dgCMatrix.c (compressed_to_TMatrix): now for (d,l,n) ,
934            symmetric & triangular and ..RMatrix objects.
935    
936            * src/TMatrix_as.c (Matrix_T_as_DENSE,Matrix_T_as_GENERAL):
937            renamed file from src/dsTMatrix.c;
938            now dealing with symmetric and triangular Tsparse coercions, both
939            to dense and general.
940    
941    2007-01-27  Martin Maechler  <maechler@stat.math.ethz.ch>
942    
943            * src/dsTMatrix.c: has now "l" and "n" methods besides the "d" ones.
944    
945            * R/Ops.R (Arith): <dgCMatrix> o <numeric> now remains sparse
946            where sensible when the <numeric> is of length > 1.
947    
948    2007-01-26  Martin Maechler  <maechler@stat.math.ethz.ch>
949    
950            * R/Matrix.R ([<-): for M[] <- value: fix length
951    
952    2007-01-25  Martin Maechler  <maechler@stat.math.ethz.ch>
953    
954            * R/Auxiliaries.R (n2l_Matrix): new, to be used in
955            * R/ndenseMatrix.R: new coercions n* -> l*
956    
957    2007-01-22  Martin Maechler  <maechler@stat.math.ethz.ch>
958    
959            * R/triangularMatrix.R: new file; simple triu() and tril() methods.
960    
961            * R/Ops.R ("Logic"): and other "Ops", many updates
962    
963    2007-01-18  Martin Maechler  <maechler@stat.math.ethz.ch>
964    
965            * src/Mutils.h (SET_DimNames): new utility
966    
967            * R/Auxiliaries.R (nnzero): improved and now exported via
968    
969            * NAMESPACE: + nnzero(); length() == prod(dim(.)) method for all "Matrix" objects
970    
971    2007-01-17  Martin Maechler  <maechler@stat.math.ethz.ch>
972    
973            * R/diagMatrix.R (!): fix typo.
974    
975    2007-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
976    
977            * R/Auxiliaries.R (as_Csparse): and quite a few others:
978                    allow to pass class definition --> speedup
979            * R/sparseMatrix.R: apply the above
980    
981            * R/Csparse.R: coercion Csparse* to dense* now preserves shape properties.
982    
983            * src/Mutils.h (mMatrix_as_geMatrix): new, based on
984            * src/Mutils.c (dup_mMatrix_as_geMatrix): new; generalization of
985            old dup_mMatrix_as_dgeMatrix), eliminating a long-standing "FIXME".
986    
987            * src/dense.c (dense_to_Csparse): use new mMatrix_as_geMatrix()
988    
989            * R/denseMatrix.R (.dense2C): based on dense_to_Csparse: name it,
990            and use it for "sparse*" as well, since it's faster than the
991            as_Csparse(.) way.
992    
993    2007-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
994    
995            * R/Ops.R ("Logic"): more methods, notably an  <lgC> o <lgC> one.
996    
997    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
998    
999            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
1000            as method for   M[ ij ] <- v
1001            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
1002    
1003            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
1004            FALSE answer
1005    
1006            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
1007            * tests/indexing.R: test it, and some of the above
1008    
1009    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
1010    
1011            * R/Auxiliaries.R (is_duplicatedT): new utility
1012    
1013    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
1014    
1015            * src/init.c (R_init_Matrix): export cholmod_scale
1016    
1017    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
1018    
1019            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
1020            base::as.matrix to (x, ...)
1021    
1022    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
1023    
1024            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
1025            file; start using "Logic", hence
1026    
1027            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
1028            * NAMESPACE: import and export "Logic"
1029    
1030    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
1031    
1032            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
1033            only needed previously to R version 2.5.0.
1034    
1035    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
1036    
1037            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
1038    
1039            * R/Tsparse.R (replTmat): fix subassignment of triangular
1040            * R/Csparse.R (replCmat): ditto
1041            * tests/indexing.R: more tests, incl the above fix
1042    
1043    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
1044    
1045            * R/Auxiliaries.R (drop0): extend for non CSparse
1046            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
1047    
1048            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
1049                    use uplo correctly (!); other places: use uplo_P() macro
1050    
1051            * R/Csparse.R (replCmat): call diagU2N() when needed
1052            * R/Tsparse.R (replTmat): ditto
1053    
1054            * src/dtCMatrix.c (tCMatrix_validate): new
1055            * src/dtTMatrix.c (tTMatrix_validate): new, used in
1056            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
1057    
1058            * R/diagMatrix.R (replDiag): to use in [<-
1059    
1060    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
1061    
1062            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
1063                    also more general diagU2N().
1064    
1065    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
1066    
1067            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
1068            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
1069    
1070    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
1071    
1072            * tests/bind.R: a few more cases
1073            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
1074    
1075            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
1076            * R/ddenseMatrix.R (cbind2/rbind2)
1077            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
1078            * tests/indexing.R
1079            * tests/indexing.Rout.save: updated
1080    
1081    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
1082    
1083            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
1084            * tests/indexing.R
1085    
1086    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
1087    
1088            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
1089            align with proper position of "0", i.e., right for integers.
1090            argument 'align' by default is "fancy".
1091    
1092    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
1093    
1094            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
1095            * R/Csparse.R: and fix "Compare" for more cases.
1096            * tests/Class+Meth.R: test some of these (m == m, m != m)
1097    
1098    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
1099    
1100            * R/lsparseMatrix.R: all() and any() methods
1101            * R/ldenseMatrix.R:      ditto
1102            * NAMESPACE, R/Matrix.R: ditto
1103    
1104            * man/all-methods.Rd: document them minimally
1105    
1106            * tests/simple.R: add a few examples for these
1107    
1108    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
1109    
1110            * R/Tsparse.R ([): fix long standing typo in symmetric case
1111            * man/dsCMatrix-class.Rd: add example exhibiting the above case
1112    
1113    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
1114    
1115            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
1116            to LL before converting to a sparse matrix. (The LDL form can be
1117            converted to a sparse matrix but it is implicitly a unit
1118            triangular matrix and a diagonal matrix overwritten on the diagonal.)
1119    
1120    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
1121    
1122            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
1123    
1124    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
1125    
1126            * DESCRIPTION (Version): updated -> release 0.9975-7
1127            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
1128    
1129  2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
1130    
1131          * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method          * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method

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