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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 536, Thu Feb 10 08:15:12 2005 UTC revision 1960, Fri Jul 6 16:54:43 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    #define Alloca(n, t)   (t *) alloca( (size_t) ( (n) * sizeof(t) ) )
19    
20  /* short forms of some enum constants from cblas.h */  SEXP triangularMatrix_validate(SEXP obj);
21    SEXP symmetricMatrix_validate(SEXP obj);
22    SEXP dense_nonpacked_validate(SEXP obj);
23    
24    /* enum constants from cblas.h and some short forms */
25    enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
26    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
27    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
28    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
29    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
30  #define RMJ CblasRowMajor  #define RMJ CblasRowMajor
31  #define CMJ CblasColMajor  #define CMJ CblasColMajor
32  #define NTR CblasNoTrans  #define NTR CblasNoTrans
# Line 18  Line 39 
39  #define LFT CblasLeft  #define LFT CblasLeft
40  #define RGT CblasRight  #define RGT CblasRight
41    
42  char norm_type(char *typstr);  char norm_type(const char *typstr);
43  char rcond_type(char *typstr);  char rcond_type(const char *typstr);
44  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
45  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
46  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
47  SEXP get_factors(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
48  SEXP set_factors(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
49  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
50  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  
51  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[]); */
52  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
53                      const int Ti [], const int Tj [], const double Tx [],  /* SEXP csc_check_column_sorting(SEXP A); */
                     char *Rclass);  
 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);  
54  SEXP Matrix_make_named(int TYP, char **names);  SEXP Matrix_make_named(int TYP, char **names);
55                                  /* stored pointers to symbols */  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
56                                  /* initialized in R_init_Matrix */  void d_packed_getDiag(double *dest, SEXP x, int n);
57  extern  void l_packed_getDiag(   int *dest, SEXP x, int n);
58    void tr_d_packed_getDiag(double *dest, SEXP x);
59    void tr_l_packed_getDiag(   int *dest, SEXP x);
60    
61    SEXP Matrix_getElement(SEXP list, char *nm);
62    
63    #define PACKED_TO_FULL(TYPE)                                            \
64    TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
65                                 int n, enum CBLAS_UPLO uplo)
66    PACKED_TO_FULL(double);
67    PACKED_TO_FULL(int);
68    #undef PACKED_TO_FULL
69    
70    #define FULL_TO_PACKED(TYPE)                                            \
71    TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
72                                  enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
73    FULL_TO_PACKED(double);
74    FULL_TO_PACKED(int);
75    #undef FULL_TO_PACKED
76    
77    
78    extern   /* stored pointers to symbols initialized in R_init_Matrix */
79  #include "Syms.h"  #include "Syms.h"
80    
81  /* zero an array */  /* zero an array */
82  #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;}
83    
84    /* number of elements in one triangle of a square matrix of order n */
85    #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
86    
87    /* duplicate the slot with name given by sym from src to dest */
88    /* FIXME: is not yet used */
89    #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
90    
91    #define slot_nonNull_dup(dest, src, sym)                        \
92        if(GET_SLOT(src, sym) != R_NilValue)                        \
93            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
94    
95    /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
96     *       and hence don't have to be set ! */
97    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
98    
99    
100    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
101    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
102    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
103    
104    /* should also work for "matrix" matrices: */
105    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
106                             (isReal(_x_) ? 0 : (isLogical(_x_) ? 1 : -1)))
107    
108    /* requires 'x' slot: */
109    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
110                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
111    
112    
113    /**
114     * Check for valid length of a packed triangular array and return the
115     * corresponding number of columns
116     *
117     * @param len length of a packed triangular array
118     *
119     * @return number of columns
120     */
121    static R_INLINE
122    int packed_ncol(int len)
123    {
124        int disc = 8 * len + 1;     /* discriminant */
125        int sqrtd = (int) sqrt((double) disc);
126    
127        if (len < 0 || disc != sqrtd * sqrtd)
128            error(_("invalid 'len' = %d in packed_ncol"));
129        return (sqrtd - 1)/2;
130    }
131    
132  /**  /**
133   * Allocate an SEXP of given type and length, assign it as slot nm in   * Allocate an SEXP of given type and length, assign it as slot nm in
134   * the object, and return the SEXP.  The validity of this function   * the object, and return the SEXP.  The validity of this function
# Line 58  Line 136 
136   * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by   * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
137   * GET_SLOT to ensure that the value returned is indeed the SEXP in   * GET_SLOT to ensure that the value returned is indeed the SEXP in
138   * the slot.   * the slot.
139     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
140     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
141     * and the R_do_slot* are in src/main/attrib.c
142   *   *
143   * @param obj object in which to assign the slot   * @param obj object in which to assign the slot
144   * @param nm name of the slot, as an R name object   * @param nm name of the slot, as an R name object
# Line 76  Line 157 
157  }  }
158    
159  /**  /**
160   * Expand the column pointers in the array mp into a full set of column indices   * Expand compressed pointers in the array mp into a full set of indices
161   * in the array mj.   * in the array mj.
162   *   *
163   * @param ncol number of columns   * @param ncol number of columns (or rows)
164   * @param mp column pointer vector of length ncol + 1   * @param mp column pointer vector of length ncol + 1
165   * @param mj vector of length mp[ncol] - 1 to hold the result   * @param mj vector of length mp[ncol] to hold the result
166   *   *
167   * @return mj   * @return mj
168   */   */
169  static R_INLINE  static R_INLINE
170  int* expand_column_pointers(int ncol, const int mp[], int mj[])  int* expand_cmprPt(int ncol, const int mp[], int mj[])
171  {  {
172      int j;      int j;
173      for (j = 0; j < ncol; j++) {      for (j = 0; j < ncol; j++) {
# Line 96  Line 177 
177      return mj;      return mj;
178  }  }
179    
180    void make_d_matrix_triangular(double *x, SEXP from);
181    void make_i_matrix_triangular(   int *x, SEXP from);
182    
183  /**  void make_d_matrix_symmetric(double *to, SEXP from);
184   * Return the linear index of the (row, col) entry in a csc structure.  void make_i_matrix_symmetric(   int *to, SEXP from);
185   * If the entry is not found and missing is 0 an error is signaled;  
186   * otherwise the missing value is returned.  SEXP Matrix_expand_pointers(SEXP pP);
187   *  
188   * @param p vector of column pointers  SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
189   * @param i vector of row indices  SEXP dup_mMatrix_as_geMatrix (SEXP A);
190   * @param row row index  
191   * @param col column index  SEXP new_dgeMatrix(int nrow, int ncol);
192   * @param missing the value to return is the row, col entry does not  
193   * exist.  If this is zero and the row, col entry does not exist an  static R_INLINE SEXP
194   * error is signaled.  mMatrix_as_dgeMatrix(SEXP A)
  *  
  * @return index of element at (row, col) if it exists, otherwise missing  
  */  
 static R_INLINE int  
 check_csc_index(const int p[], const int i[], int row, int col, int missing)  
195  {  {
196      int k, k2 = p[col + 1];      return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
                                 /* linear search - perhaps replace by bsearch */  
     for (k = p[col]; k < k2; k++) if (i[k] == row) return k;  
     if (!missing)  
         error("row %d and column %d not defined in rowind and colptr",  
               row, col);  
     return missing;  
197  }  }
198    
199  SEXP alloc3Darray(SEXPTYPE mode, int nrow, int ncol, int nface);  static R_INLINE SEXP
200    mMatrix_as_geMatrix(SEXP A)
 /**  
  * Calculate the zero-based index in a row-wise packed lower triangular matrix.  
  * This is used for the arrays of blocked sparse matrices.  
  *  
  * @param i column number (zero-based)  
  * @param k row number (zero-based)  
  *  
  * @return The index of the (k,i) element of a packed lower triangular matrix  
  */  
 static R_INLINE  
 int Lind(int k, int i)  
201  {  {
202      if (k < i) error("Lind(k = %d, i = %d) must have k >= i", k, i);      return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
     return (k * (k + 1))/2 + i;  
203  }  }
204    
205  /**  /**
206   * Check for a complete match on matrix dimensions   * Return the 0-based index of a string match in a vector of strings
207     * terminated by an empty string.  Returns -1 for no match.
208   *   *
209   * @param xd dimensions of first matrix   * @param dest class string to match
210   * @param yd dimensions of second matrix   * @param valid vector of possible matches terminated by an empty string
211   *   *
212   * @return 1 if dimensions match, otherwise 0   * @return index of match or -1 for no match
213   */   */
214  static R_INLINE  static R_INLINE int
215  int match_mat_dims(const int xd[], const int yd[])  Matrix_check_class(const char *class, char **valid)
216  {  {
217      return xd[0] == yd[0] && xd[1] == yd[1];      int ans;
218        for (ans = 0; ; ans++) {
219            if (!strlen(valid[ans])) return -1;
220            if (!strcmp(class, valid[ans])) return ans;
221        }
222  }  }
223    
224  double *expand_csc_column(double *dest, int m, int j,  #ifdef __cplusplus
225                            const int Ap[], const int Ai[], const double Ax[]);  }
   
226  #endif  #endif
227    
228    #endif /* MATRIX_MUTILS_H_ */

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