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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 476, Wed Feb 2 11:51:24 2005 UTC revision 2045, Tue Aug 14 13:07:10 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  #include "cblas.h"  #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    #ifdef __GNUC__
19    # undef alloca
20    # define alloca(x) __builtin_alloca((x))
21    #endif
22    
23  /* short forms of some enum constants from cblas.h */  #define Alloca(n, t)   (t *) alloca( (size_t) ( (n) * sizeof(t) ) )
24    
25    SEXP triangularMatrix_validate(SEXP obj);
26    SEXP symmetricMatrix_validate(SEXP obj);
27    SEXP dense_nonpacked_validate(SEXP obj);
28    
29    /* enum constants from cblas.h and some short forms */
30    enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
31    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
32    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
33    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
34    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
35  #define RMJ CblasRowMajor  #define RMJ CblasRowMajor
36  #define CMJ CblasColMajor  #define CMJ CblasColMajor
37  #define NTR CblasNoTrans  #define NTR CblasNoTrans
# Line 18  Line 44 
44  #define LFT CblasLeft  #define LFT CblasLeft
45  #define RGT CblasRight  #define RGT CblasRight
46    
47  char norm_type(char *typstr);  char norm_type(const char *typstr);
48  char rcond_type(char *typstr);  char rcond_type(const char *typstr);
49  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
50  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
51  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
52  SEXP get_factors(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
53  SEXP set_factors(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
54  SEXP cscMatrix_set_Dim(SEXP x, int nrow);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
55  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  
56  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[]); */
57  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
58                      const int Ti [], const int Tj [], const double Tx [],  /* SEXP csc_check_column_sorting(SEXP A); */
59                      char *Rclass);  SEXP Matrix_make_named(int TYP, char **names);
60  SEXP csc_check_column_sorting(SEXP A);  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
61  void csc_components_transpose(int m, int n, int nnz,  void d_packed_getDiag(double *dest, SEXP x, int n);
62                                const int xp[], const int xi[],  void l_packed_getDiag(   int *dest, SEXP x, int n);
63                                const double xx[],  void tr_d_packed_getDiag(double *dest, SEXP x);
64                                int ap[], int ai[], double ax[]);  void tr_l_packed_getDiag(   int *dest, SEXP x);
65  void ssc_symbolic_permute(int n, int upper, const int perm[],  
66                            int Ap[], int Ai[]);  SEXP Matrix_getElement(SEXP list, char *nm);
67  double *nlme_symmetrize(double *a, const int nc);  
68  void nlme_check_Lapack_error(int info, const char *laName);  #define PACKED_TO_FULL(TYPE)                                            \
69  SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
70  SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);                               int n, enum CBLAS_UPLO uplo)
71    PACKED_TO_FULL(double);
72                                  /* stored pointers to symbols */  PACKED_TO_FULL(int);
73                                  /* initialized in R_init_Matrix */  #undef PACKED_TO_FULL
74  extern  
75    #define FULL_TO_PACKED(TYPE)                                            \
76    TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
77                                  enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
78    FULL_TO_PACKED(double);
79    FULL_TO_PACKED(int);
80    #undef FULL_TO_PACKED
81    
82    
83    extern   /* stored pointers to symbols initialized in R_init_Matrix */
84  #include "Syms.h"  #include "Syms.h"
85    
86  /* zero an array */  /* zero an array */
87  #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}  #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}
88    
89    /* number of elements in one triangle of a square matrix of order n */
90    #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
91    
92    /* duplicate the slot with name given by sym from src to dest */
93    /* FIXME: is not yet used */
94    #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
95    
96    #define slot_nonNull_dup(dest, src, sym)                        \
97        if(GET_SLOT(src, sym) != R_NilValue)                        \
98            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
99    
100    /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
101     *       and hence don't have to be set ! */
102    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
103    
104    
105    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
106    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
107    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
108    
109    /* should also work for "matrix" matrices: */
110    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
111                             (isReal(_x_) ? 0 : (isLogical(_x_) ? 1 : -1)))
112    
113    /* requires 'x' slot: */
114    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
115                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
116    
117    
118    /**
119     * Check for valid length of a packed triangular array and return the
120     * corresponding number of columns
121     *
122     * @param len length of a packed triangular array
123     *
124     * @return number of columns
125     */
126    static R_INLINE
127    int packed_ncol(int len)
128    {
129        int disc = 8 * len + 1;     /* discriminant */
130        int sqrtd = (int) sqrt((double) disc);
131    
132        if (len < 0 || disc != sqrtd * sqrtd)
133            error(_("invalid 'len' = %d in packed_ncol"));
134        return (sqrtd - 1)/2;
135    }
136    
137    /**
138     * Allocate an SEXP of given type and length, assign it as slot nm in
139     * the object, and return the SEXP.  The validity of this function
140     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
141     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
142     * GET_SLOT to ensure that the value returned is indeed the SEXP in
143     * the slot.
144     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
145     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
146     * and the R_do_slot* are in src/main/attrib.c
147     *
148     * @param obj object in which to assign the slot
149     * @param nm name of the slot, as an R name object
150     * @param type type of SEXP to allocate
151     * @param length length of SEXP to allocate
152     *
153     * @return SEXP of given type and length assigned as slot nm in obj
154     */
155    static R_INLINE
156    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
157    {
158        SEXP val = allocVector(type, length);
159    
160        SET_SLOT(obj, nm, val);
161        return val;
162    }
163    
164    /**
165     * Expand compressed pointers in the array mp into a full set of indices
166     * in the array mj.
167     *
168     * @param ncol number of columns (or rows)
169     * @param mp column pointer vector of length ncol + 1
170     * @param mj vector of length mp[ncol] to hold the result
171     *
172     * @return mj
173     */
174    static R_INLINE
175    int* expand_cmprPt(int ncol, const int mp[], int mj[])
176    {
177        int j;
178        for (j = 0; j < ncol; j++) {
179            int j2 = mp[j+1], jj;
180            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
181        }
182        return mj;
183    }
184    
185    void make_d_matrix_triangular(double *x, SEXP from);
186    void make_i_matrix_triangular(   int *x, SEXP from);
187    
188    void make_d_matrix_symmetric(double *to, SEXP from);
189    void make_i_matrix_symmetric(   int *to, SEXP from);
190    
191    SEXP Matrix_expand_pointers(SEXP pP);
192    
193    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
194    SEXP dup_mMatrix_as_geMatrix (SEXP A);
195    
196    SEXP new_dgeMatrix(int nrow, int ncol);
197    
198    static R_INLINE SEXP
199    mMatrix_as_dgeMatrix(SEXP A)
200    {
201        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
202    }
203    
204    static R_INLINE SEXP
205    mMatrix_as_geMatrix(SEXP A)
206    {
207        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
208    }
209    
210    /**
211     * Return the 0-based index of a string match in a vector of strings
212     * terminated by an empty string.  Returns -1 for no match.
213     *
214     * @param dest class string to match
215     * @param valid vector of possible matches terminated by an empty string
216     *
217     * @return index of match or -1 for no match
218     */
219    static R_INLINE int
220    Matrix_check_class(const char *class, char **valid)
221    {
222        int ans;
223        for (ans = 0; ; ans++) {
224            if (!strlen(valid[ans])) return -1;
225            if (!strcmp(class, valid[ans])) return ans;
226        }
227    }
228    
229    #ifdef __cplusplus
230    }
231  #endif  #endif
232    
233    #endif /* MATRIX_MUTILS_H_ */

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