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[matrix] Diff of /pkg/src/Mutils.h
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Diff of /pkg/src/Mutils.h

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revision 296, Mon Oct 4 17:13:29 2004 UTC revision 1867, Mon Jun 4 17:13:02 2007 UTC
# Line 1  Line 1 
1  #ifndef MATRIX_MUTILS_H  #ifndef MATRIX_MUTILS_H
2  #define MATRIX_MUTILS_H  #define MATRIX_MUTILS_H
3    
4  #include <Rdefines.h>  #ifdef __cplusplus
5  #include <Rconfig.h>  extern "C" {
6    #endif
7    
8    #include <Rdefines.h> /* Rinternals.h + GET_SLOT etc */
9    #include <R.h>  /* includes Rconfig.h */
10    
11    #ifdef ENABLE_NLS
12    #include <libintl.h>
13    #define _(String) dgettext ("Matrix", String)
14    #else
15    #define _(String) (String)
16    #endif
17    
18    SEXP triangularMatrix_validate(SEXP obj);
19    SEXP symmetricMatrix_validate(SEXP obj);
20    SEXP dense_nonpacked_validate(SEXP obj);
21    
22  char norm_type(char *typstr);  /* enum constants from cblas.h and some short forms */
23  char rcond_type(char *typstr);  enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
24    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
25    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
26    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
27    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
28    #define RMJ CblasRowMajor
29    #define CMJ CblasColMajor
30    #define NTR CblasNoTrans
31    #define TRN CblasTrans
32    #define CTR CblasConjTrans
33    #define UPP CblasUpper
34    #define LOW CblasLower
35    #define NUN CblasNonUnit
36    #define UNT CblasUnit
37    #define LFT CblasLeft
38    #define RGT CblasRight
39    
40    char norm_type(const char *typstr);
41    char rcond_type(const char *typstr);
42  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
43  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
44  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
45  SEXP get_factorization(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
46  SEXP set_factorization(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
47  SEXP cscMatrix_set_Dim(SEXP x, int nrow);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
48  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  
49  void csc_sort_columns(int ncol, const int p[], int i[], double x[]);  /* int csc_unsorted_columns(int ncol, const int p[], const int i[]); */
50  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
51                      const int Ti [], const int Tj [], const double Tx [],  /* SEXP csc_check_column_sorting(SEXP A); */
52                      char *Rclass);  SEXP Matrix_make_named(int TYP, char **names);
53  SEXP csc_check_column_sorting(SEXP A);  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
54  void csc_components_transpose(int m, int n, int nnz,  void d_packed_getDiag(double *dest, SEXP x, int n);
55                                const int xp[], const int xi[],  void l_packed_getDiag(   int *dest, SEXP x, int n);
56                                const double xx[],  void tr_d_packed_getDiag(double *dest, SEXP x);
57                                int ap[], int ai[], double ax[]);  void tr_l_packed_getDiag(   int *dest, SEXP x);
58  void triplet_to_col(int nrow, int ncol, int nz,  
59                      const int Ti [], const int Tj [], const double Tx [],  SEXP Matrix_getElement(SEXP list, char *nm);
60                      int Ap [], int Ai [], double Ax []);  
61  void ssc_symbolic_permute(int n, int upper, const int perm[],  #define PACKED_TO_FULL(TYPE)                                            \
62                            int Ap[], int Ai[]);  TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
63  double *nlme_symmetrize(double *a, const int nc);                               int n, enum CBLAS_UPLO uplo)
64  void nlme_check_Lapack_error(int info, const char *laName);  PACKED_TO_FULL(double);
65  SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  PACKED_TO_FULL(int);
66  SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);  #undef PACKED_TO_FULL
67    
68                                  /* stored pointers to symbols */  #define FULL_TO_PACKED(TYPE)                                            \
69                                  /* initialized in R_init_Matrix */  TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
70  extern SEXP                                enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
71      Matrix_DSym,  FULL_TO_PACKED(double);
72      Matrix_DIsqrtSym,  FULL_TO_PACKED(int);
73      Matrix_DimSym,  #undef FULL_TO_PACKED
74      Matrix_GpSym,  
75      Matrix_LSym,  
76      Matrix_LiSym,  extern   /* stored pointers to symbols initialized in R_init_Matrix */
77      Matrix_LinvSym,  #include "Syms.h"
78      Matrix_LpSym,  
79      Matrix_LxSym,  /* zero an array */
80      Matrix_OmegaSym,  #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}
81      Matrix_ParentSym,  
82      Matrix_RXXSym,  /* number of elements in one triangle of a square matrix of order n */
83      Matrix_RZXSym,  #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
84      Matrix_XtXSym,  
85      Matrix_ZtXSym,  /* duplicate the slot with name given by sym from src to dest */
86      Matrix_ZZxSym,  /* FIXME: is not yet used */
87      Matrix_bVarSym,  #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
88      Matrix_cnamesSym,  
89      Matrix_devianceSym,  #define slot_nonNull_dup(dest, src, sym)                        \
90      Matrix_devCompSym,      if(GET_SLOT(src, sym) != R_NilValue)                        \
91      Matrix_diagSym,          SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
92      Matrix_iSym,  
93      Matrix_ipermSym,  /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
94      Matrix_jSym,   *       and hence don't have to be set ! */
95      Matrix_matSym,  #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
96      Matrix_ncSym,  
97      Matrix_pSym,  
98      Matrix_permSym,  #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
99      Matrix_statusSym,  #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
100      Matrix_uploSym,  #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
101      Matrix_xSym,  
102      Matrix_zSym;  /* should also work for "matrix" matrices: */
103    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
104                             (isReal(_x_) ? 0 : (isLogical(_x_) ? 1 : -1)))
105    
106    /* requires 'x' slot: */
107    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
108                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
109    
110    
111    /**
112     * Check for valid length of a packed triangular array and return the
113     * corresponding number of columns
114     *
115     * @param len length of a packed triangular array
116     *
117     * @return number of columns
118     */
119    static R_INLINE
120    int packed_ncol(int len)
121    {
122        int disc = 8 * len + 1;     /* discriminant */
123        int sqrtd = (int) sqrt((double) disc);
124    
125        if (len < 0 || disc != sqrtd * sqrtd)
126            error(_("invalid 'len' = %d in packed_ncol"));
127        return (sqrtd - 1)/2;
128    }
129    
130    /**
131     * Allocate an SEXP of given type and length, assign it as slot nm in
132     * the object, and return the SEXP.  The validity of this function
133     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
134     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
135     * GET_SLOT to ensure that the value returned is indeed the SEXP in
136     * the slot.
137     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
138     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
139     * and the R_do_slot* are in src/main/attrib.c
140     *
141     * @param obj object in which to assign the slot
142     * @param nm name of the slot, as an R name object
143     * @param type type of SEXP to allocate
144     * @param length length of SEXP to allocate
145     *
146     * @return SEXP of given type and length assigned as slot nm in obj
147     */
148    static R_INLINE
149    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
150    {
151        SEXP val = allocVector(type, length);
152    
153        SET_SLOT(obj, nm, val);
154        return val;
155    }
156    
157    /**
158     * Expand compressed pointers in the array mp into a full set of indices
159     * in the array mj.
160     *
161     * @param ncol number of columns (or rows)
162     * @param mp column pointer vector of length ncol + 1
163     * @param mj vector of length mp[ncol] to hold the result
164     *
165     * @return mj
166     */
167    static R_INLINE
168    int* expand_cmprPt(int ncol, const int mp[], int mj[])
169    {
170        int j;
171        for (j = 0; j < ncol; j++) {
172            int j2 = mp[j+1], jj;
173            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
174        }
175        return mj;
176    }
177    
178    void make_d_matrix_triangular(double *x, SEXP from);
179    void make_i_matrix_triangular(   int *x, SEXP from);
180    
181    void make_d_matrix_symmetric(double *to, SEXP from);
182    void make_i_matrix_symmetric(   int *to, SEXP from);
183    
184    SEXP Matrix_expand_pointers(SEXP pP);
185    
186    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
187    SEXP dup_mMatrix_as_geMatrix (SEXP A);
188    
189    SEXP new_dgeMatrix(int nrow, int ncol);
190    
191    static R_INLINE SEXP
192    mMatrix_as_dgeMatrix(SEXP A)
193    {
194        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
195    }
196    
197    static R_INLINE SEXP
198    mMatrix_as_geMatrix(SEXP A)
199    {
200        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
201    }
202    
203    /**
204     * Return the 0-based index of a string match in a vector of strings
205     * terminated by an empty string.  Returns -1 for no match.
206     *
207     * @param dest class string to match
208     * @param valid vector of possible matches terminated by an empty string
209     *
210     * @return index of match or -1 for no match
211     */
212    static R_INLINE int
213    Matrix_check_class(const char *class, char **valid)
214    {
215        int ans;
216        for (ans = 0; ; ans++) {
217            if (!strlen(valid[ans])) return -1;
218            if (!strcmp(class, valid[ans])) return ans;
219        }
220    }
221    
222    #ifdef __cplusplus
223    }
224  #endif  #endif
225    
226    #endif /* MATRIX_MUTILS_H_ */

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