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revision 1507, Mon Sep 4 18:41:34 2006 UTC revision 1725, Wed Jan 17 08:01:10 2007 UTC
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1    2007-01-17  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * R/diagMatrix.R (!): fix typo.
4    
5    2007-01-16  Martin Maechler  <maechler@stat.math.ethz.ch>
6    
7            * R/Auxiliaries.R (as_Csparse): and quite a few others:
8                    allow to pass class definition --> speedup
9            * R/sparseMatrix.R: apply the above
10    
11            * R/Csparse.R: coercion Csparse* to dense* now preserves shape properties.
12    
13            * src/Mutils.h (mMatrix_as_geMatrix): new, based on
14            * src/Mutils.c (dup_mMatrix_as_geMatrix): new; generalization of
15            old dup_mMatrix_as_dgeMatrix), eliminating a long-standing "FIXME".
16    
17            * src/dense.c (dense_to_Csparse): use new mMatrix_as_geMatrix()
18    
19            * R/denseMatrix.R (.dense2C): based on dense_to_Csparse: name it,
20            and use it for "sparse*" as well, since it's faster than the
21            as_Csparse(.) way.
22    
23    2007-01-15  Martin Maechler  <maechler@stat.math.ethz.ch>
24    
25            * R/Ops.R ("Logic"): more methods, notably an  <lgC> o <lgC> one.
26    
27    2007-01-12  Martin Maechler  <maechler@stat.math.ethz.ch>
28    
29            * R/Tsparse.R (.TM.repl.i.2col): new internal function to be used
30            as method for   M[ ij ] <- v
31            * R/Csparse.R:: go via Tsparse for "M[ij] <- v"
32    
33            * R/Ops.R: "Compare" for (C|R)sparse: need pointer slot for all
34            FALSE answer
35    
36            * R/Csparse.R (replCmat): fix the "all non-zero" case with reordering
37            * tests/indexing.R: test it, and some of the above
38    
39    2007-01-05  Martin Maechler  <maechler@stat.math.ethz.ch>
40    
41            * R/Auxiliaries.R (is_duplicatedT): new utility
42    
43    2007-01-05  Douglas Bates  <bates@stat.wisc.edu>
44    
45            * src/init.c (R_init_Matrix): export cholmod_scale
46    
47    2006-12-30  Martin Maechler  <maechler@stat.math.ethz.ch>
48    
49            * R/zzz.R (tmp): for R >= 2.5.0, extend formals of our
50            base::as.matrix to (x, ...)
51    
52    2006-12-28  Martin Maechler  <maechler@stat.math.ethz.ch>
53    
54            * R/Ops.R ("Arith" etc): move almost all "Ops" methods to new R
55            file; start using "Logic", hence
56    
57            * DESCRIPTION (Depends): R >= 2.4.1 (since we want "Logic")
58            * NAMESPACE: import and export "Logic"
59    
60    2006-12-27  Martin Maechler  <maechler@stat.math.ethz.ch>
61    
62            * src/zpotfr.f and dependencies: use LAPACK 3.1 version
63            only needed previously to R version 2.5.0.
64    
65    2006-12-26  Martin Maechler  <maechler@stat.math.ethz.ch>
66    
67            * DESCRIPTION (Date, Version): 0.9975-8, ready for release
68    
69            * R/Tsparse.R (replTmat): fix subassignment of triangular
70            * R/Csparse.R (replCmat): ditto
71            * tests/indexing.R: more tests, incl the above fix
72    
73    2006-12-23  Martin Maechler  <maechler@stat.math.ethz.ch>
74    
75            * R/Auxiliaries.R (drop0): extend for non CSparse
76            * R/Auxiliaries.R (diagU2N): should work for all sparseMatrix
77    
78            * src/Csparse.c (Csparse_to_Tsparse, Csparse_general_to_symmetric):
79                    use uplo correctly (!); other places: use uplo_P() macro
80    
81            * R/Csparse.R (replCmat): call diagU2N() when needed
82            * R/Tsparse.R (replTmat): ditto
83    
84            * src/dtCMatrix.c (tCMatrix_validate): new
85            * src/dtTMatrix.c (tTMatrix_validate): new, used in
86            * R/AllClass.R: for validity of dtC, dsC, and dtT, dsT.
87    
88            * R/diagMatrix.R (replDiag): to use in [<-
89    
90    2006-12-22  Martin Maechler  <maechler@stat.math.ethz.ch>
91    
92            * R/Auxiliaries.R (as_Csparse2, as_geSimpl): new functions;
93                    also more general diagU2N().
94    
95    2006-12-21  Martin Maechler  <maechler@stat.math.ethz.ch>
96    
97            * R/bind2.R: new file for all cbind2(), rbind() methods moved here
98            from R/<foo>Matrix.R files. Better diagonal & improved sparse methods.
99    
100    2006-12-20  Martin Maechler  <maechler@stat.math.ethz.ch>
101    
102            * tests/bind.R: a few more cases
103            * R/Auxiliaries.R (.M.kind): also work for atomic vectors
104    
105            * R/denseMatrix.R (cbind2/rbind2): moved here (and generalized) from
106            * R/ddenseMatrix.R (cbind2/rbind2)
107            * R/Tsparse.R (replTmat): final(?!) fix for "[<-" ..
108            * tests/indexing.R
109            * tests/indexing.Rout.save: updated
110    
111    2006-12-18  Martin Maechler  <maechler@stat.math.ethz.ch>
112    
113            * R/Tsparse.R (replTmat): fixed a remaining "[<-" bug in
114            * tests/indexing.R
115    
116    2006-12-15  Martin Maechler  <maechler@stat.math.ethz.ch>
117    
118            * R/sparseMatrix.R (prSpMatrix): "." alignment much improved:
119            align with proper position of "0", i.e., right for integers.
120            argument 'align' by default is "fancy".
121    
122    2006-12-14  Martin Maechler  <maechler@stat.math.ethz.ch>
123    
124            * R/sparseMatrix.R: delegate "Compare" to "Csparse.."
125            * R/Csparse.R: and fix "Compare" for more cases.
126            * tests/Class+Meth.R: test some of these (m == m, m != m)
127    
128    2006-12-13  Martin Maechler  <maechler@stat.math.ethz.ch>
129    
130            * R/lsparseMatrix.R: all() and any() methods
131            * R/ldenseMatrix.R:      ditto
132            * NAMESPACE, R/Matrix.R: ditto
133    
134            * man/all-methods.Rd: document them minimally
135    
136            * tests/simple.R: add a few examples for these
137    
138    2006-12-11  Martin Maechler  <maechler@stat.math.ethz.ch>
139    
140            * R/Tsparse.R ([): fix long standing typo in symmetric case
141            * man/dsCMatrix-class.Rd: add example exhibiting the above case
142    
143    2006-12-10  Douglas Bates  <bates@stat.wisc.edu>
144    
145            * src/CHMfactor.c (CHMfactor_to_sparse): change LDL factorization
146            to LL before converting to a sparse matrix. (The LDL form can be
147            converted to a sparse matrix but it is implicitly a unit
148            triangular matrix and a diagonal matrix overwritten on the diagonal.)
149    
150    2006-12-09  Douglas Bates  <bates@stat.wisc.edu>
151    
152            * src/chm_common.c (chm_factor_to_SEXP): allocate and fill the Dim slot.
153    
154    2006-12-08  Douglas Bates  <bates@stat.wisc.edu>
155    
156            * DESCRIPTION (Version): updated -> release 0.9975-7
157            * src/{init.c,chm_common.c}, inst/include/*: export cholmod_analyze_p
158    
159    2006-11-30  Martin Maechler  <maechler@stat.math.ethz.ch>
160    
161            * R/diagMatrix.R (%*%): write a direct [diag o Csparse] method
162    
163    2006-11-29  Douglas Bates  <bates@stat.wisc.edu>
164    
165            * src/dgeMatrix.c (dgeMatrix_solve): Check error code from dgetri.
166            * tests/dg_Matrix.R: Add Barry Rowlingson's test of a matrix that
167            is exactly singular.
168    
169    2006-11-07  Martin Maechler  <maechler@stat.math.ethz.ch>
170    
171            * DESCRIPTION (Date): updated -> release 0.9975-6
172    
173    2006-11-06  Martin Maechler  <maechler@stat.math.ethz.ch>
174    
175            * R/Csparse.R (replCmat): symmetric indexing of symmetric matrix
176            now returns symmetric.
177    
178            * R/zzz.R ("diag<-"): replace "diag<-" in base for R <= 2.4.x
179    
180            * R/Matrix.R (.M.sub.i.2col):  new, for  M[ cbind(i,j) ] indexing.
181            * R/Matrix.R (.M.repl.i.2col): new, for  M[ cbind(i,j) ] <- value
182    
183            * R/Auxiliaries.R (.type.kind): added
184    
185    2006-11-04  Martin Maechler  <maechler@stat.math.ethz.ch>
186    
187            * src/cs.[ch]: updated to CSparse Version 2.0.3 by simply
188            running src/CSparse_install.sh
189    
190            * R/denseMatrix.R: "[": keep symmetric on symmetric indexing.
191    
192    2006-11-03  Martin Maechler  <maechler@stat.math.ethz.ch>
193    
194            * src/dsCMatrix.c (dsCMatrix_Csparse_solve): new
195            * R/dsCMatrix.R (solve): "fully-sparse" using the above.
196    
197            * R/AllClass.R: "pMatrix" now also inherits from "generalMatrix"
198    
199            * tests/Class+Meth.R (tstMatrixClass): now assure
200            the (important in method programming) property :
201    
202                    ###>>  Every "Matrix" is either
203                    ###>>  "general*", "symmetric*", "triangular*" or "diagonal*"
204    
205                    (where "*" stands for "Matrix")
206    
207            * R/Auxiliaries.R (diagU2N): now .Call()s Csparse_diagU2N for <Csparse>
208    
209            * R/dMatrix.R (Compare(<dMatrix>,<dMatrix>): update and
210            * tests/validObj.R: checks for "comparison"
211    
212            * R/sparseMatrix.R ([): improved indexing for sparse;
213                    trying to keep <symmetric>[ n, n] symmmetric
214    
215            * tests/indexing.R: indexing for logical sparse now ok
216    
217    
218    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
219    
220            * src/Tsparse.c: use xTsparse_validate() , and hence remove
221    
222            * src/{ltC,lsC,lgT}Matrix.[ch]: removed
223    
224    2006-11-02  Martin Maechler  <maechler@stat.math.ethz.ch>
225    
226            * R/AllClass.R (Matrix-class): check length of dimnames in validity.
227    
228            * tests/simple.R: validObject() checking the above.
229    
230            * src/dgCMatrix.c (xCMatrix_validate): new, small and simple,
231            replacing both dgCMatrix_validate and lgCM*.
232    
233            * src/Csparse.c (Csparse_dense_prod, etc): do not lose dimnames;
234            fix dimnames setting in other places.
235            * src/chm_common.c (chm_dense_to_SEXP): now can pass dimnames
236    
237    2006-11-01  Martin Maechler  <maechler@stat.math.ethz.ch>
238    
239            * R/Csparse.R,src/Csparse.c, etc: tcrossprod(<CsparseM>,<CsparseM>)
240    
241            * R/sparseMatrix.R (isSymmetric): drop 'factors' slot for
242            symmetry test, via
243            * R/Auxiliaries.R (.as.dgC.0.factors):
244    
245    2006-11-01  Douglas Bates  <bates@r-project.org>
246    
247            * R/Csparse.R,src/Csparse.c,tests/matprod.R,
248            man/CsparseMatrix-class.Rd: crossprod(<CsparseMatrix>,
249            <CsparseMatrix>) added
250    
251    2006-10-30  Martin Maechler  <maechler@stat.math.ethz.ch>
252    
253            * tests/matprod.R: add a variation of Harri's example
254    
255            * R/dsparseMatrix.R: fix crossprod(<dsparse>, <dge>) to *not*
256            recursive infinitely.
257    
258            * R/dgCMatrix.R: + solve(<sparse>, <sparse>)
259    
260            * tests/indexing.R: add test for the "<" bug fixed 10-27 in R/dMatrix.R
261    
262    2006-10-28  Martin Maechler  <maechler@stat.math.ethz.ch>
263    
264            * tests/Class+Meth.R (tstMatrixClass): more: use non-trivial
265            matrix if possible; test m+m == 2*m; now test dgRMatrix.
266            * R/dgRMatrix.R (.to.dgR): a few more coercions, in order to
267            satisfy the above test.
268    
269    2006-10-27  Martin Maechler  <maechler@stat.math.ethz.ch>
270    
271            * R/Matrix.R (Ops):  <Matrix> o <matrix>  method added
272    
273            * R/dgCMatrix.R: solve(a, b="missing") based on
274            * src/dgCMatrix.c (dgCMatrix_matrix_solve): extend to work with
275            RHS = NULL.
276    
277            * R/diagMatrix.R (diagdiagprod): extend %*% etc to ldiMatrix;
278            add more (needed) [t]crossprod() methods.
279    
280            * man/ddiMatrix-class.Rd: more info, notably on 'diag'
281    
282            * R/Auxiliaries.R (as_CspClass): cleanup
283            (drop0): internal utility for "Csparse_drop(*, 0)"
284            (.bail.out.2): encourage active feedback
285    
286    2006-10-26  Martin Maechler  <maechler@stat.math.ethz.ch>
287    
288            * R/dMatrix.R(Compare): new(), then slots [no validity check]
289    
290            * src/Csparse.c (Csparse_validate): fixed (and more efficient in
291            non-valid or 'sorted' case).
292    
293            * R/dsparseMatrix.R: add "chol" method.
294            * R/ddenseMatrix.R: ditto
295    
296            * R/diagMatrix.R (Ops): group methods for  <diagonal> o <sparse>
297            * NAMESPACE (Ops)
298            * R/diagMatrix.R (diag2T): simple utility used "higher level"
299            coercion; deprecating direct lower level coercions.
300    
301            * R/*.R (seq): use seq_len() and seq_along() where possible.
302    
303    
304    2006-10-23  Martin Maechler  <maechler@stat.math.ethz.ch>
305    
306            * DESCRIPTION (Version): 0.9975-5 ready for release
307    
308    2006-10-20  Douglas Bates  <bates@stat.wisc.edu>
309    
310            * src/init.c (R_init_Matrix): export more cholmod CCallable functions.
311    
312    2006-10-20  Martin Maechler  <maechler@stat.math.ethz.ch>
313    
314            * R/AllClass.R (corMatrix): add 'validity' check;
315                    comment out unused "LDL" class definition
316            * NAMESPACE: mention, but do not export "LDL" class
317            * R/corMatrix.R: new (simple), needed for R-devel with
318            * tests/Class+Meth.R (tstMatrixClass): 1 exception for corMatrix
319              coerce and t() exceptions for all 5 'Mat.MatFact' classes.
320    
321    2006-10-19  Douglas Bates  <bates@stat.wisc.edu>
322    
323            * src/chm_common.h: Add R_cholmod_start to initialize cholmod to
324            use Rprintf and R's error handling.
325    
326    2006-10-17  Martin Maechler  <maechler@stat.math.ethz.ch>
327    
328            * R/diagMatrix.R (%*%): rep(*, each = .) in Matrix %*% diagonal.
329            * tests/matprod.R: add tests for the bug fixed.
330    
331    2006-10-11  Douglas Bates  <bates@stat.wisc.edu>
332    
333            * src/HBMM.[ch]: remove HarwellBoeing format for writing.
334            * src/SOURCES_C.mkf (SOURCES_C): no longer compile iohb.c
335    
336    2006-10-06  Douglas Bates  <bates@stat.wisc.edu>
337    
338            * R/d[gs]CMatrix.R: deprecate the writeHB function.  Use writeMM instead.
339    
340    2006-10-06  Martin Maechler  <maechler@stat.math.ethz.ch>
341    
342            * DESCRIPTION (Version): 0.9975-3
343    
344            * R/diagMatrix.R (bdiag): new function constructing block diagonal
345            (sparse) matrices.
346            * man/bdiag.Rd: docu + examples
347    
348            * R/Csparse.R (replCmat): calling new Csparse_drop() now.
349    
350            * src/Csparse.c (Csparse_general_to_symmetric, Csparse_drop): new functions
351            * R/lsCMatrix.R: three more coercions to lsC (thanks to the above)
352    
353            * R/diagMatrix.R (Diagonal): '[<-' method for diag.matrices such
354            that result is sparse or diagonal (and not dense).
355    
356            * man/Subassign-methods.Rd: fix examples
357    
358            * R/Matrix.R (Matrix):  Matrix(0, *) or Matrix(*, sparse=TRUE)
359            should always return a sparse (and not sometimes a diagonal) matrix.
360    
361    2006-10-05  Martin Maechler  <maechler@stat.math.ethz.ch>
362    
363            * R/Matrix.R ([<-): also for value "Matrix" or "matrix"
364    
365    2006-10-04  Douglas Bates  <bates@stat.wisc.edu>
366    
367            * DESCRIPTION (Version): 0.9975-2
368    
369            * inst/include/Matrix_stubs.c (M_cholmod_sparse_to_triplet): export more symbols
370    
371    2006-10-02  Douglas Bates  <bates@R-project.org>
372    
373            * tests/dg_Matrix.R: Simplify test taking into account new code.
374    
375    2006-09-29  Martin Maechler  <maechler@stat.math.ethz.ch>
376    
377            * R/Csparse.R (replCmat): improve for missing i / j in non-simple cases
378    
379            * R/lsTMatrix.R: new files w/ missing methods
380            * R/nsTMatrix.R:  "  'for completeness'
381    
382            * tests/Class+Meth.R: a bit less 'not.ok.classes'
383    
384            * R/Tsparse.R (t): generalized "t" method from "dgT*" to "Tsparse*"
385    
386    
387    2006-09-28  Douglas Bates  <bates@R-project.org>
388    
389            * src/dppMatrix.h: Ensure definition of dspMatrix_validate is
390            included.
391    
392            * src/init.c, inst/include/{Matrix.h,Matrix_stubs.h,cholmod.h}:
393            Export C-callable functions used in Zt_create in lme4.
394    
395    2006-09-28  Martin Maechler  <maechler@stat.math.ethz.ch>
396    
397            * DESCRIPTION (Version): 0.9975-1
398    
399            * tests/simple.R: less checks fail; using NA, found that our
400                    kronecker() is not base-compatible with NA's.
401    
402            * R/dMatrix.R: "Compare" method now implemented for all cases
403    
404            * R/Auxiliaries.R (indTri): == which([lower/upper].tri( * )) new utility
405    
406            * man/dtpMatrix-class.Rd: mention length of 'x' slot
407    
408            * src/dtpMatrix.c (dtpMatrix_validate): fix check
409            * src/dspMatrix.c (dspMatrix_validate): ditto
410    
411            * R/dtTMatrix.R (gt2tT): fix ("l" -> "n")
412              including coercion to [nl]tTMatrix.
413    
414            * R/diagMatrix.R (show): print a header line as for other classes.
415    
416    2006-09-27  Martin Maechler  <maechler@stat.math.ethz.ch>
417    
418            * src/Makefile.win (SUBDIRS): fix typo
419    
420    2006-09-19  Martin Maechler  <maechler@stat.math.ethz.ch>
421    
422            * DESCRIPTION (Date): ready to release 0.9975-0 to CRAN
423    
424    2006-09-18  Douglas Bates  <bates@stat.wisc.edu>
425    
426            * R/[CT]sparse.R (crossprod and tcrossprod): Handle the cases for x
427            symmetric and y missing in R code using %*% (cholmod_aat doesn't
428            accept a symmetric matrix).
429            * tests/group-methods.R: Uncomment test of crossprod applied to
430            lsCMatrix objects.
431    
432    2006-09-18  Martin Maechler  <maechler@stat.math.ethz.ch>
433    
434            * R/AllClass.R (symmetricMatrix): add validity method (available
435            in C for a long time). Many "n..Matrix": drop (wrong) validity arg.
436    
437            * src/lgCMatrix.c (lgCMatrix_validate): check 'x' slot (!)
438    
439            * tests/indexing.Rout.save:
440            * tests/indexing.R: additions, mainly for 'lsparse'
441    
442            * R/diagMatrix.R (Diagonal) & coercion to lgTMatrix: fixes for NA
443            case.
444    
445            * R/Auxiliaries.R (nz.NA): new utility now used in nnzero()
446    
447    2006-09-16  Martin Maechler  <maechler@stat.math.ethz.ch>
448    
449            * R/sparseMatrix.R (prSpMatrix): print logical NAs "visibly"
450                    as 'N' (1-letter - Ok?)
451    
452            * tests/group-methods.R: add test for logical + NAs
453    
454            * R/dMatrix.R ("Compare"): fix to work with NA's
455    
456            * R/AllClass.R: "Cholesky" etc now inherit from MatrixFactorization.
457    
458            * src/lgCMatrix.c (ncsc_to_matrix): renamed from lcsc_to_matrix()
459                    which is implemented.
460    
461    2006-09-15  Martin Maechler  <maechler@stat.math.ethz.ch>
462    
463            * src/chm_common.c: coerce logical <-> double instead of
464            typecasting;  needed for "l" matrix handling in cholmod.
465    
466            * tests/other-pkgs.R (graph): small extension in "graph" checks.
467    
468            * R/sparseMatrix.R (graphNEL -> Tsparse): method for weight case.
469            (Tsp2grNEL): other fixes needed
470    
471    2006-09-11  Martin Maechler  <maechler@stat.math.ethz.ch>
472    
473            * R/AllClass.R ("nMatrix"): and subclasses for "nonzero pattern"
474                    Matrices, since "lMatrix", also "lsparseM" can have NA
475            * R/ndenseMatrix.R, etc: new source files
476            * man/nsparseMatrix-classes.Rd, etc: new help files
477            * tests/: adaptions
478            * src/chm_common.c (chm_dense_to_SEXP): and others:
479                    new 'Rkind' argument: "l*" and "d*" both use CHOLMOD_REAL
480            * src/Csparse.c, etc: ditto
481    
482    2006-09-11  Douglas Bates  <bates@R-project.org>
483    
484            * src/Mutils.[ch],init.c inst/include/*.h: Move the
485            alloc_d**Matrix functions to the lme4 package.
486    
487    2006-09-09  Douglas Bates  <bates@R-project.org>
488    
489            * src/dsCMatrix.c (dsCMatrix_Cholesky): igoring LDL = FALSE now
490            fixed
491    
492    2006-09-09  Martin Maechler  <maechler@stat.math.ethz.ch>
493    
494            * R/lMatrix.R: new
495    
496            * R/sparseMatrix.R (Tsp2grNEL): do not yet use graph::foo()
497    
498            * R/dgeMatrix.R: do not define tcrossprod() methods for "matrix"
499            * man/tcrossprod.Rd: ditto
500    
501    2006-09-08  Douglas Bates  <bates@stat.wisc.edu>
502    
503            * inst/include/Matrix_stubs.c,Matrix.h: Add declarations and stubs
504            for exported functions
505            * src/Makefile, src/CHOLMOD/Lib/Makefile, src/Metis,CAMD,CCOLAMD:
506            Remove partitioning algorithms for sparse matrix reordering.  The
507            copyright on the Metis code was problematic and the methods were
508            rarely used.
509            * src/triplet_to_col.[ch],MMHB.[ch]: Remove triplet_to_col.  Such
510            operations are now done entirely in CHOLMOD code.
511    
512    2006-09-06  Douglas Bates  <bates@R-project.org>
513    
514            * src/Mutils.h: Remove functions that are no longer used.
515    
516  2006-09-04  Douglas Bates  <bates@R-project.org>  2006-09-04  Douglas Bates  <bates@R-project.org>
517    
518          * src/dtCMatrix.c (dtCMatrix_validate): rename functions.          * src/dtCMatrix.c (dtCMatrix_validate): rename functions.
# Line 24  Line 539 
539    
540          * R/sparseMatrix.R (Arith): moved Arith group method one-level up          * R/sparseMatrix.R (Arith): moved Arith group method one-level up
541          from "dsparse" to "sparse" and now go via "Csparse" instead of "dgC"          from "dsparse" to "sparse" and now go via "Csparse" instead of "dgC"
542          * R/dsparseMatrix.R: dito          * R/dsparseMatrix.R: ditto
543          * R/Csparse.R: dito          * R/Csparse.R: ditto
544    
545  2006-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>  2006-08-31  Martin Maechler  <maechler@stat.math.ethz.ch>
546    
# Line 41  Line 556 
556    
557          * 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
558          * R/Auxiliaries.R (isTriMat): use all0() for 0-testing.          * R/Auxiliaries.R (isTriMat): use all0() for 0-testing.
559          (.is.diagonal): dito          (.is.diagonal): ditto
560    
561          * R/lgTMatrix.R: as("matrix", "lgTMatrix"): warn about NA's          * R/lgTMatrix.R: as("matrix", "lgTMatrix"): warn about NA's
562    

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