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Diff of /pkg/ChangeLog

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revision 1368, Sat Aug 12 17:34:00 2006 UTC revision 1447, Fri Aug 25 20:38:36 2006 UTC
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1    2006-08-25  Martin Maechler  <maechler@stat.math.ethz.ch>
2    
3            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): added all subclasses of
4            subclasses of "ddenseMatrix"
5            * src/init.c et al: outcomment dtrM*_as_dge* and dsyM*_as_dge*_
6            * R/ddenseMatrix.R et al: setAs("ddenseMatrix", "dgeMatrix", ..)
7            instead of half dozen specialized ones.
8    
9    2006-08-25  Douglas Bates  <bates@R-project.org>
10    
11            * R/lmer.R (qqmath method): Bug fix provided by Emmanuel Tillard
12            <tillard@cirad.fr> - ordering standard errors to match effects.
13    
14    2006-08-24  Douglas Bates  <bates@R-project.org>
15    
16            * src/lsCMatrix.c (lsCMatrix_trans): Remove lsCMatrix_chol based
17            on R_ldl.
18            * R/lCholCMatrix.R,
19            src/[dl]CholCMatrix.[ch],R_ldl.[ch],Metis_utils.[ch]: removed
20            * src/dsCMatrix.c (dsCMatrix_to_dgTMatrix): use CHOLMOD
21            * many files in ./R and ./src: Use more general version of
22            dup_mMatrix_as_dgeMatrix to simplify method definitions.
23            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): Add ddiMatrix,
24            dtpMatrix, dspMatrix and dppMatrix conversions.
25    
26    
27    2006-08-23  Douglas Bates  <bates@R-project.org>
28    
29            * R/AllClass.R,lCholCMatrix.R,src/SOURCES_C.mkf,init.c,NAMESPACE:
30            Remove classes lCholCMatrix and dCholCMatrix based on R_ldl code.
31            * src/dgeMatrix.c: Ensure 'factors' slot exists in result of
32            dgeMatrix_crossprod (may need to do this in other places).
33            * R/AllGeneric.R,dsCMatrix.R, src/dscMatrix.[ch]: Add Cholesky
34            generic and method for dsCMatrix.  Use CHOLMOD for chol().
35    
36    2006-08-22  Douglas Bates  <bates@R-project.org>
37    
38            * src/Mutils.c (dup_mMatrix_as_dgeMatrix): updated for general
39            types of classed Matrices, matrices or numeric or logical vectors.
40            * src/init.c: register dup_mMatrix_as_dgeMatrix for coercions.
41            * src/chm_common.c,Mutils.h (as_cholmod_factor): Move check_class
42            to Mutils.h (as an inline) and change name to Matrix_check_class;
43            fixes in as_cholmod_factor and chm_factor_to_SEXP.
44            * src/dsCMatrix.[ch]: Use CHOLMOD for dsCMatrix_chol and
45            dsCMatrix_matrix_solve.  Comment out vestigial functions.
46            * src/Csparse.c: use diag_P and uplo_P macros.
47    
48    2006-08-21  Douglas Bates  <bates@R-project.org>
49    
50            * src/lmer.c (internal_mer_RZXinv): Fix memory leak caught by
51            valgrind.
52            * tests/matprod.R: Add tests to verify that 'solve' and '%*%' are
53            inverses.
54            * src/sparseQR.c (sparseQR_validate): add new validation test, fix
55            -Wall warnings.
56            * src/dppMatrix.c,dtrMatrix.c,dgCMatrix.c,dgeMatrix.c,dspMatrix.c:
57            Use dup_mMatrix_as_dgeMatrix.
58    
59    2006-08-20  Douglas Bates  <bates@R-project.org>
60    
61            * src/sparseQR.c: Fix thinko in sparseQR_resid_fitted.
62            * tests/sparseQR.R: Added
63            * man/sparseQR-class.Rd: Document methods for qr.* generics
64            * R/sparseQR.R: Return correct # of coefs; fix cut-and-paste errors
65    
66    2006-08-19  Douglas Bates  <bates@R-project.org>
67    
68            * NAMESPACE, R/sparseQR.R, src/init.c,sparseQR.[ch],SOURCES_C.mkf:
69            Added methods for sparseQR for qr.qy, qr.qty, qr.coef, qr.resid
70            and qr.fitted.
71            * src/Mutils.[ch]: Added dup_mMatrix_as_dgeMatrix utility
72            * src/dgCMatrix.c: Check for ordering before storing q in dgCMatrix_QR
73    
74    2006-08-18  Martin Maechler  <maechler@stat.math.ethz.ch>
75    
76            * R/AllGeneric.R: add "qr" and "chol" generics; via 'trick' since
77            the base version has no "..." argument.
78    
79            * R/sparseMatrix.R (prSpMatrix): fix the triangular unit diagonal case.
80    
81            * R/Matrix.R: define and
82            * NAMESPACE: export as.numeric() and as.logical() methods.
83                    Let's hope these do not badly slow down something...
84            Finally export the zapsmall() method.
85    
86    2006-08-17  Douglas Bates  <bates@R-project.org>
87    
88            * src/dgCMatrix.[ch] (dgCMatrix_matrix_solve), src/init.c,
89            R/dgCMatrix.R: solve methods for dgCMatrix and dense RHS.
90            * src/dtCMatrix.c :Remove code that is no longer used
91            * R/dtCMatrix.R: Use C code for diagU2N in CsparseMatrix classes
92    
93    2006-08-14  Douglas Bates  <bates@R-project.org>
94    
95            * src/Csparse.[ch],init.c (Csparse_to_logical): Added utilities
96            Csparse_to_logical and Csparse_symmetric_to_general.
97            * R/dgCMatrix.R,dsCMatrix.R,Csparse.R : Consolidate general
98            coercion methods between CsparseMatrix and TsparseMatrix.
99    
100    2006-08-14  Douglas Bates  <bates@R-project.org>
101    
102            * R/dtCMatrix.R,dgCMatrix.R,Csparse.R src/init.c,dgCMatrix.[ch],
103            Csparse.[ch],chm_common.c,dense.c : Use CHOLMOD code and methods
104            for CsparseMatrix, TsparseMatrix, denseMatrix or matrix when
105            possible.
106    
107  2006-08-12  Douglas Bates  <bates@R-project.org>  2006-08-12  Douglas Bates  <bates@R-project.org>
108    
109          * 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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