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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 493, Thu Feb 3 18:47:20 2005 UTC revision 2120, Tue Mar 4 21:44:41 2008 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 <ctype.h>
9    #include <R.h>  /* includes Rconfig.h */
10    #include <Rdefines.h> /* Rinternals.h + GET_SLOT etc */
11    
12    #ifdef ENABLE_NLS
13    #include <libintl.h>
14    #define _(String) dgettext ("Matrix", String)
15    #else
16    #define _(String) (String)
17    #endif
18    
19  /* short forms of some enum constants from cblas.h */  #ifdef __GNUC__
20    # undef alloca
21    # define alloca(x) __builtin_alloca((x))
22    #else
23    /* this is necessary (and sufficient) for Solaris 10: */
24    #ifdef __sun
25    # include <alloca.h>
26    #endif
27    #endif
28    
29    #define Alloca(n, t)   (t *) alloca( (size_t) ( (n) * sizeof(t) ) )
30    
31    SEXP triangularMatrix_validate(SEXP obj);
32    SEXP symmetricMatrix_validate(SEXP obj);
33    SEXP dense_nonpacked_validate(SEXP obj);
34    
35    /* enum constants from cblas.h and some short forms */
36    enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
37    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
38    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
39    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
40    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
41  #define RMJ CblasRowMajor  #define RMJ CblasRowMajor
42  #define CMJ CblasColMajor  #define CMJ CblasColMajor
43  #define NTR CblasNoTrans  #define NTR CblasNoTrans
# Line 18  Line 50 
50  #define LFT CblasLeft  #define LFT CblasLeft
51  #define RGT CblasRight  #define RGT CblasRight
52    
53  char norm_type(char *typstr);  #if !defined(R_VERSION) || R_VERSION < R_Version(2, 7, 0)
54  char rcond_type(char *typstr);  char La_norm_type(const char *typstr);
55    char La_rcond_type(const char *typstr);
56    #endif
57    
58  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
59  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
60  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
61  SEXP get_factors(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
62  SEXP set_factors(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
63    
64    #if 0
65  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
66  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  #endif  /* unused */
67  void csc_sort_columns(int ncol, const int p[], int i[], double x[]);  
68  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  /* int csc_unsorted_columns(int ncol, const int p[], const int i[]); */
69                      const int Ti [], const int Tj [], const double Tx [],  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
70                      char *Rclass);  /* SEXP csc_check_column_sorting(SEXP A); */
 SEXP csc_check_column_sorting(SEXP A);  
 void csc_components_transpose(int m, int n, int nnz,  
                               const int xp[], const int xi[],  
                               const double xx[],  
                               int ap[], int ai[], double ax[]);  
 void ssc_symbolic_permute(int n, int upper, const int perm[],  
                           int Ap[], int Ai[]);  
 double *nlme_symmetrize(double *a, const int nc);  
 void nlme_check_Lapack_error(int info, const char *laName);  
 SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  
 SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);  
71  SEXP Matrix_make_named(int TYP, char **names);  SEXP Matrix_make_named(int TYP, char **names);
72                                  /* stored pointers to symbols */  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
73                                  /* initialized in R_init_Matrix */  Rboolean equal_string_vectors(SEXP s1, SEXP s2);
74  extern  
75    void d_packed_getDiag(double *dest, SEXP x, int n);
76    void l_packed_getDiag(   int *dest, SEXP x, int n);
77    void tr_d_packed_getDiag(double *dest, SEXP x);
78    void tr_l_packed_getDiag(   int *dest, SEXP x);
79    
80    SEXP Matrix_getElement(SEXP list, char *nm);
81    
82    #define PACKED_TO_FULL(TYPE)                                            \
83    TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
84                                 int n, enum CBLAS_UPLO uplo)
85    PACKED_TO_FULL(double);
86    PACKED_TO_FULL(int);
87    #undef PACKED_TO_FULL
88    
89    #define FULL_TO_PACKED(TYPE)                                            \
90    TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
91                                  enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
92    FULL_TO_PACKED(double);
93    FULL_TO_PACKED(int);
94    #undef FULL_TO_PACKED
95    
96    
97    extern   /* stored pointers to symbols initialized in R_init_Matrix */
98  #include "Syms.h"  #include "Syms.h"
99    
100  /* zero an array */  /* zero an array */
101  #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;}
102    
103    /* number of elements in one triangle of a square matrix of order n */
104    #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
105    
106    /* duplicate the slot with name given by sym from src to dest */
107    
108    #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
109    
110    /* is not yet used: */
111    #define slot_nonNull_dup(dest, src, sym)                        \
112        if(GET_SLOT(src, sym) != R_NilValue)                        \
113            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
114    
115    /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
116     *       and hence don't have to be set ! */
117    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
118    
119    
120    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
121    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
122    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
123    
124    /* should also work for "matrix" matrices: */
125    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
126                             (isReal(_x_) ? 0 : (isLogical(_x_) ? 1 : -1)))
127    /* This one gives '0' also for integer "matrix" :*/
128    #define Real_KIND2(_x_) (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
129                             (isLogical(_x_) ? 1 : 0))
130    
131    /* requires 'x' slot: */
132    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
133                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
134    
135    #define DECLARE_AND_GET_X_SLOT(__C_TYPE, __SEXP)        \
136        __C_TYPE *xx = __SEXP(GET_SLOT(x, Matrix_xSym))
137    
138    
139    /**
140     * Check for valid length of a packed triangular array and return the
141     * corresponding number of columns
142     *
143     * @param len length of a packed triangular array
144     *
145     * @return number of columns
146     */
147    static R_INLINE
148    int packed_ncol(int len)
149    {
150        int disc = 8 * len + 1;     /* discriminant */
151        int sqrtd = (int) sqrt((double) disc);
152    
153        if (len < 0 || disc != sqrtd * sqrtd)
154            error(_("invalid 'len' = %d in packed_ncol"));
155        return (sqrtd - 1)/2;
156    }
157    
158    /**
159     * Allocate an SEXP of given type and length, assign it as slot nm in
160     * the object, and return the SEXP.  The validity of this function
161     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
162     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
163     * GET_SLOT to ensure that the value returned is indeed the SEXP in
164     * the slot.
165     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
166     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
167     * and the R_do_slot* are in src/main/attrib.c
168     *
169     * @param obj object in which to assign the slot
170     * @param nm name of the slot, as an R name object
171     * @param type type of SEXP to allocate
172     * @param length length of SEXP to allocate
173     *
174     * @return SEXP of given type and length assigned as slot nm in obj
175     */
176    static R_INLINE
177    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
178    {
179        SEXP val = allocVector(type, length);
180    
181        SET_SLOT(obj, nm, val);
182        return val;
183    }
184    
185    /**
186     * Expand compressed pointers in the array mp into a full set of indices
187     * in the array mj.
188     *
189     * @param ncol number of columns (or rows)
190     * @param mp column pointer vector of length ncol + 1
191     * @param mj vector of length mp[ncol] to hold the result
192     *
193     * @return mj
194     */
195    static R_INLINE
196    int* expand_cmprPt(int ncol, const int mp[], int mj[])
197    {
198        int j;
199        for (j = 0; j < ncol; j++) {
200            int j2 = mp[j+1], jj;
201            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
202        }
203        return mj;
204    }
205    
206    void make_d_matrix_triangular(double *x, SEXP from);
207    void make_i_matrix_triangular(   int *x, SEXP from);
208    
209    void make_d_matrix_symmetric(double *to, SEXP from);
210    void make_i_matrix_symmetric(   int *to, SEXP from);
211    
212    SEXP Matrix_expand_pointers(SEXP pP);
213    
214    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
215    SEXP dup_mMatrix_as_geMatrix (SEXP A);
216    
217    SEXP new_dgeMatrix(int nrow, int ncol);
218    
219    static R_INLINE SEXP
220    mMatrix_as_dgeMatrix(SEXP A)
221    {
222        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
223    }
224    
225    static R_INLINE SEXP
226    mMatrix_as_geMatrix(SEXP A)
227    {
228        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
229    }
230    
231    /**
232     * Return the 0-based index of a string match in a vector of strings
233     * terminated by an empty string.  Returns -1 for no match.
234     *
235     * @param class string to match
236     * @param valid vector of possible matches terminated by an empty string
237     *
238     * @return index of match or -1 for no match
239     */
240    static R_INLINE int
241    Matrix_check_class(const char *class, char **valid)
242    {
243        int ans;
244        for (ans = 0; ; ans++) {
245            if (!strlen(valid[ans])) return -1;
246            if (!strcmp(class, valid[ans])) return ans;
247        }
248    }
249    
250    #ifdef __cplusplus
251    }
252  #endif  #endif
253    
254    #endif /* MATRIX_MUTILS_H_ */

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