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Diff of /pkg/ChangeLog

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revision 1368, Sat Aug 12 17:34:00 2006 UTC revision 1453, Sun Aug 27 16:16:35 2006 UTC
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1    2006-08-27  Douglas Bates  <bates@R-project.org>
2    
3            * src/dense.[ch],init.c, R/ddenseMatrix.R, man/band.Rd
4            (ddense_band): Added triu, tril and band for ddenseMatrix objects.
5    
6    2006-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
7    
8            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): added all subclasses of
9            subclasses of "ddenseMatrix"
10            * src/init.c et al: outcomment dtrM*_as_dge* and dsyM*_as_dge*_
11            * R/ddenseMatrix.R et al: setAs("ddenseMatrix", "dgeMatrix", ..)
12            instead of half dozen specialized ones.
13    
14    2006-08-25  Douglas Bates  <bates@R-project.org>
15    
16            * R/lmer.R (qqmath method): Bug fix provided by Emmanuel Tillard
17            <tillard@cirad.fr> - ordering standard errors to match effects.
18    
19    2006-08-24  Douglas Bates  <bates@R-project.org>
20    
21            * src/lsCMatrix.c (lsCMatrix_trans): Remove lsCMatrix_chol based
22            on R_ldl.
23            * R/lCholCMatrix.R,
24            src/[dl]CholCMatrix.[ch],R_ldl.[ch],Metis_utils.[ch]: removed
25            * src/dsCMatrix.c (dsCMatrix_to_dgTMatrix): use CHOLMOD
26            * many files in ./R and ./src: Use more general version of
27            dup_mMatrix_as_dgeMatrix to simplify method definitions.
28            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): Add ddiMatrix,
29            dtpMatrix, dspMatrix and dppMatrix conversions.
30    
31    
32    2006-08-23  Douglas Bates  <bates@R-project.org>
33    
34            * R/AllClass.R,lCholCMatrix.R,src/SOURCES_C.mkf,init.c,NAMESPACE:
35            Remove classes lCholCMatrix and dCholCMatrix based on R_ldl code.
36            * src/dgeMatrix.c: Ensure 'factors' slot exists in result of
37            dgeMatrix_crossprod (may need to do this in other places).
38            * R/AllGeneric.R,dsCMatrix.R, src/dscMatrix.[ch]: Add Cholesky
39            generic and method for dsCMatrix.  Use CHOLMOD for chol().
40    
41    2006-08-22  Douglas Bates  <bates@R-project.org>
42    
43            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): updated for general
44            types of classed Matrices, matrices or numeric or logical vectors.
45            * src/init.c: register dup_mMatrix_as_dgeMatrix for coercions.
46            * src/chm_common.c,Mutils.h (as_cholmod_factor): Move check_class
47            to Mutils.h (as an inline) and change name to Matrix_check_class;
48            fixes in as_cholmod_factor and chm_factor_to_SEXP.
49            * src/dsCMatrix.[ch]: Use CHOLMOD for dsCMatrix_chol and
50            dsCMatrix_matrix_solve.  Comment out vestigial functions.
51            * src/Csparse.c: use diag_P and uplo_P macros.
52    
53    2006-08-21  Douglas Bates  <bates@R-project.org>
54    
55            * src/lmer.c (internal_mer_RZXinv): Fix memory leak caught by
56            valgrind.
57            * tests/matprod.R: Add tests to verify that 'solve' and '%*%' are
58            inverses.
59            * src/sparseQR.c (sparseQR_validate): add new validation test, fix
60            -Wall warnings.
61            * src/dppMatrix.c,dtrMatrix.c,dgCMatrix.c,dgeMatrix.c,dspMatrix.c:
62            Use dup_mMatrix_as_dgeMatrix.
63    
64    2006-08-20  Douglas Bates  <bates@R-project.org>
65    
66            * src/sparseQR.c: Fix thinko in sparseQR_resid_fitted.
67            * tests/sparseQR.R: Added
68            * man/sparseQR-class.Rd: Document methods for qr.* generics
69            * R/sparseQR.R: Return correct # of coefs; fix cut-and-paste errors
70    
71    2006-08-19  Douglas Bates  <bates@R-project.org>
72    
73            * NAMESPACE, R/sparseQR.R, src/init.c,sparseQR.[ch],SOURCES_C.mkf:
74            Added methods for sparseQR for qr.qy, qr.qty, qr.coef, qr.resid
75            and qr.fitted.
76            * src/Mutils.[ch]: Added dup_mMatrix_as_dgeMatrix utility
77            * src/dgCMatrix.c: Check for ordering before storing q in dgCMatrix_QR
78    
79    2006-08-18  Martin Maechler  <maechler@stat.math.ethz.ch>
80    
81            * R/AllGeneric.R: add "qr" and "chol" generics; via 'trick' since
82            the base version has no "..." argument.
83    
84            * R/sparseMatrix.R (prSpMatrix): fix the triangular unit diagonal case.
85    
86            * R/Matrix.R: define and
87            * NAMESPACE: export as.numeric() and as.logical() methods.
88                    Let's hope these do not badly slow down something...
89            Finally export the zapsmall() method.
90    
91    2006-08-17  Douglas Bates  <bates@R-project.org>
92    
93            * src/dgCMatrix.[ch] (dgCMatrix_matrix_solve), src/init.c,
94            R/dgCMatrix.R: solve methods for dgCMatrix and dense RHS.
95            * src/dtCMatrix.c :Remove code that is no longer used
96            * R/dtCMatrix.R: Use C code for diagU2N in CsparseMatrix classes
97    
98    2006-08-14  Douglas Bates  <bates@R-project.org>
99    
100            * src/Csparse.[ch],init.c (Csparse_to_logical): Added utilities
101            Csparse_to_logical and Csparse_symmetric_to_general.
102            * R/dgCMatrix.R,dsCMatrix.R,Csparse.R : Consolidate general
103            coercion methods between CsparseMatrix and TsparseMatrix.
104    
105    2006-08-14  Douglas Bates  <bates@R-project.org>
106    
107            * R/dtCMatrix.R,dgCMatrix.R,Csparse.R src/init.c,dgCMatrix.[ch],
108            Csparse.[ch],chm_common.c,dense.c : Use CHOLMOD code and methods
109            for CsparseMatrix, TsparseMatrix, denseMatrix or matrix when
110            possible.
111    
112  2006-08-12  Douglas Bates  <bates@R-project.org>  2006-08-12  Douglas Bates  <bates@R-project.org>
113    
114          * src/chm_common.[ch],Csparse.[ch],Tsparse.[ch],CHMfactor.c,dtTMatrix.c,          * src/chm_common.[ch],Csparse.[ch],Tsparse.[ch],CHMfactor.c,dtTMatrix.c,

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