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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 255, Fri Aug 20 16:27:15 2004 UTC revision 2121, Tue Mar 4 22:01:33 2008 UTC
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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    extern "C" {
6    #endif
7    
8    #include <ctype.h>
9    #include <R.h>  /* includes Rconfig.h */
10    #include <Rversion.h>
11    #include <Rdefines.h> /* Rinternals.h + GET_SLOT etc */
12    
13    #ifdef ENABLE_NLS
14    #include <libintl.h>
15    #define _(String) dgettext ("Matrix", String)
16    #else
17    #define _(String) (String)
18    #endif
19    
20    #ifdef __GNUC__
21    # undef alloca
22    # define alloca(x) __builtin_alloca((x))
23    #else
24    /* this is necessary (and sufficient) for Solaris 10: */
25    #ifdef __sun
26    # include <alloca.h>
27    #endif
28    #endif
29    
30    #define Alloca(n, t)   (t *) alloca( (size_t) ( (n) * sizeof(t) ) )
31    
32    SEXP triangularMatrix_validate(SEXP obj);
33    SEXP symmetricMatrix_validate(SEXP obj);
34    SEXP dense_nonpacked_validate(SEXP obj);
35    
36    /* enum constants from cblas.h and some short forms */
37    enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
38    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
39    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
40    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
41    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
42    #define RMJ CblasRowMajor
43    #define CMJ CblasColMajor
44    #define NTR CblasNoTrans
45    #define TRN CblasTrans
46    #define CTR CblasConjTrans
47    #define UPP CblasUpper
48    #define LOW CblasLower
49    #define NUN CblasNonUnit
50    #define UNT CblasUnit
51    #define LFT CblasLeft
52    #define RGT CblasRight
53    
54    #if !defined(R_VERSION) || R_VERSION < R_Version(2, 7, 0)
55    char La_norm_type(const char *typstr);
56    char La_rcond_type(const char *typstr);
57    #endif
58    
 char norm_type(char *typstr);  
 char rcond_type(char *typstr);  
59  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
60  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
61  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
62  SEXP get_factorization(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
63  SEXP set_factorization(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
64  SEXP cscMatrix_set_Dim(SEXP x, int nrow);  
65  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  #if 0
66  void csc_sort_columns(int ncol, const int p[], int i[], double x[]);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
67  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  #endif  /* unused */
68                      const int Ti [], const int Tj [], const double Tx [],  
69                      char *Rclass);  /* int csc_unsorted_columns(int ncol, const int p[], const int i[]); */
70  SEXP csc_check_column_sorting(SEXP A);  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
71  void csc_components_transpose(int m, int n, int nnz,  /* SEXP csc_check_column_sorting(SEXP A); */
72                                const int xp[], const int xi[],  SEXP Matrix_make_named(int TYP, char **names);
73                                const double xx[],  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
74                                int ap[], int ai[], double ax[]);  Rboolean equal_string_vectors(SEXP s1, SEXP s2);
75  void triplet_to_col(int nrow, int ncol, int nz,  
76                      const int Ti [], const int Tj [], const double Tx [],  void d_packed_getDiag(double *dest, SEXP x, int n);
77                      int Ap [], int Ai [], double Ax []);  void l_packed_getDiag(   int *dest, SEXP x, int n);
78  void ssc_symbolic_permute(int n, int upper, const int perm[],  void tr_d_packed_getDiag(double *dest, SEXP x);
79                            int Ap[], int Ai[]);  void tr_l_packed_getDiag(   int *dest, SEXP x);
80  double *nlme_symmetrize(double *a, const int nc);  
81  void nlme_check_Lapack_error(int info, const char *laName);  SEXP Matrix_getElement(SEXP list, char *nm);
82  SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  
83  SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);  #define PACKED_TO_FULL(TYPE)                                            \
84    TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
85                                  /* stored pointers to symbols */                               int n, enum CBLAS_UPLO uplo)
86                                  /* initialized in Matrix_init */  PACKED_TO_FULL(double);
87  extern SEXP  PACKED_TO_FULL(int);
88      Matrix_DSym,  #undef PACKED_TO_FULL
89      Matrix_DIsqrtSym,  
90      Matrix_DimSym,  #define FULL_TO_PACKED(TYPE)                                            \
91      Matrix_GpSym,  TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
92      Matrix_LiSym,                                enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
93      Matrix_LpSym,  FULL_TO_PACKED(double);
94      Matrix_LxSym,  FULL_TO_PACKED(int);
95      Matrix_OmegaSym,  #undef FULL_TO_PACKED
96      Matrix_ParentSym,  
97      Matrix_RXXSym,  
98      Matrix_RZXSym,  extern   /* stored pointers to symbols initialized in R_init_Matrix */
99      Matrix_XtXSym,  #include "Syms.h"
100      Matrix_ZtXSym,  
101      Matrix_ZZxSym,  /* zero an array */
102      Matrix_bVarSym,  #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}
103      Matrix_cnamesSym,  
104      Matrix_devianceSym,  /* number of elements in one triangle of a square matrix of order n */
105      Matrix_devCompSym,  #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
106      Matrix_diagSym,  
107      Matrix_iSym,  /* duplicate the slot with name given by sym from src to dest */
108      Matrix_ipermSym,  
109      Matrix_jSym,  #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
110      Matrix_matSym,  
111      Matrix_ncSym,  /* is not yet used: */
112      Matrix_pSym,  #define slot_nonNull_dup(dest, src, sym)                        \
113      Matrix_permSym,      if(GET_SLOT(src, sym) != R_NilValue)                        \
114      Matrix_statusSym,          SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
115      Matrix_uploSym,  
116      Matrix_xSym,  /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
117      Matrix_zSym;   *       and hence don't have to be set ! */
118    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
119    
120    
121    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
122    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
123    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
124    
125    /* should also work for "matrix" matrices: */
126    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
127                             (isReal(_x_) ? 0 : (isLogical(_x_) ? 1 : -1)))
128    /* This one gives '0' also for integer "matrix" :*/
129    #define Real_KIND2(_x_) (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
130                             (isLogical(_x_) ? 1 : 0))
131    
132    /* requires 'x' slot: */
133    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
134                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
135    
136    #define DECLARE_AND_GET_X_SLOT(__C_TYPE, __SEXP)        \
137        __C_TYPE *xx = __SEXP(GET_SLOT(x, Matrix_xSym))
138    
139    
140    /**
141     * Check for valid length of a packed triangular array and return the
142     * corresponding number of columns
143     *
144     * @param len length of a packed triangular array
145     *
146     * @return number of columns
147     */
148    static R_INLINE
149    int packed_ncol(int len)
150    {
151        int disc = 8 * len + 1;     /* discriminant */
152        int sqrtd = (int) sqrt((double) disc);
153    
154        if (len < 0 || disc != sqrtd * sqrtd)
155            error(_("invalid 'len' = %d in packed_ncol"));
156        return (sqrtd - 1)/2;
157    }
158    
159    /**
160     * Allocate an SEXP of given type and length, assign it as slot nm in
161     * the object, and return the SEXP.  The validity of this function
162     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
163     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
164     * GET_SLOT to ensure that the value returned is indeed the SEXP in
165     * the slot.
166     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
167     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
168     * and the R_do_slot* are in src/main/attrib.c
169     *
170     * @param obj object in which to assign the slot
171     * @param nm name of the slot, as an R name object
172     * @param type type of SEXP to allocate
173     * @param length length of SEXP to allocate
174     *
175     * @return SEXP of given type and length assigned as slot nm in obj
176     */
177    static R_INLINE
178    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
179    {
180        SEXP val = allocVector(type, length);
181    
182        SET_SLOT(obj, nm, val);
183        return val;
184    }
185    
186    /**
187     * Expand compressed pointers in the array mp into a full set of indices
188     * in the array mj.
189     *
190     * @param ncol number of columns (or rows)
191     * @param mp column pointer vector of length ncol + 1
192     * @param mj vector of length mp[ncol] to hold the result
193     *
194     * @return mj
195     */
196    static R_INLINE
197    int* expand_cmprPt(int ncol, const int mp[], int mj[])
198    {
199        int j;
200        for (j = 0; j < ncol; j++) {
201            int j2 = mp[j+1], jj;
202            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
203        }
204        return mj;
205    }
206    
207    void make_d_matrix_triangular(double *x, SEXP from);
208    void make_i_matrix_triangular(   int *x, SEXP from);
209    
210    void make_d_matrix_symmetric(double *to, SEXP from);
211    void make_i_matrix_symmetric(   int *to, SEXP from);
212    
213    SEXP Matrix_expand_pointers(SEXP pP);
214    
215    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
216    SEXP dup_mMatrix_as_geMatrix (SEXP A);
217    
218    SEXP new_dgeMatrix(int nrow, int ncol);
219    
220    static R_INLINE SEXP
221    mMatrix_as_dgeMatrix(SEXP A)
222    {
223        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
224    }
225    
226    static R_INLINE SEXP
227    mMatrix_as_geMatrix(SEXP A)
228    {
229        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
230    }
231    
232    /**
233     * Return the 0-based index of a string match in a vector of strings
234     * terminated by an empty string.  Returns -1 for no match.
235     *
236     * @param class string to match
237     * @param valid vector of possible matches terminated by an empty string
238     *
239     * @return index of match or -1 for no match
240     */
241    static R_INLINE int
242    Matrix_check_class(const char *class, char **valid)
243    {
244        int ans;
245        for (ans = 0; ; ans++) {
246            if (!strlen(valid[ans])) return -1;
247            if (!strcmp(class, valid[ans])) return ans;
248        }
249    }
250    
251    #ifdef __cplusplus
252    }
253  #endif  #endif
254    
255    #endif /* MATRIX_MUTILS_H_ */

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