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

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pkg/src/Mutils.h revision 412, Tue Dec 28 15:06:55 2004 UTC pkg/Matrix/src/Mutils.h revision 2628, Sat Dec 11 16:56:51 2010 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>  #undef Matrix_with_SPQR
5  #include <Rconfig.h>  
6    #ifdef __cplusplus
7    extern "C" {
8    #endif
9    
10    #include <ctype.h>
11    #include <R.h>  /* includes Rconfig.h */
12    #include <Rversion.h>
13    #include <Rdefines.h> /* Rinternals.h + GET_SLOT etc */
14    
15    #ifdef ENABLE_NLS
16    #include <libintl.h>
17    #define _(String) dgettext ("Matrix", String)
18    #else
19    #define _(String) (String)
20    /* Note that this is not yet supported (for Windows, e.g.) in R 2.9.0 : */
21    #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String)
22    #endif
23    
24    #ifdef __GNUC__
25    # undef alloca
26    # define alloca(x) __builtin_alloca((x))
27    #elif defined(__sun) || defined(_AIX)
28    /* this is necessary (and sufficient) for Solaris 10 and AIX 6: */
29    # include <alloca.h>
30    #endif
31    
32    #define Alloca(n, t)   (t *) alloca( (size_t) ( (n) * sizeof(t) ) )
33    
34    SEXP triangularMatrix_validate(SEXP obj);
35    SEXP symmetricMatrix_validate(SEXP obj);
36    SEXP dense_nonpacked_validate(SEXP obj);
37    
38    /* enum constants from cblas.h and some short forms */
39    enum CBLAS_ORDER {CblasRowMajor=101, CblasColMajor=102};
40    enum CBLAS_TRANSPOSE {CblasNoTrans=111, CblasTrans=112, CblasConjTrans=113};
41    enum CBLAS_UPLO {CblasUpper=121, CblasLower=122};
42    enum CBLAS_DIAG {CblasNonUnit=131, CblasUnit=132};
43    enum CBLAS_SIDE {CblasLeft=141, CblasRight=142};
44    #define RMJ CblasRowMajor
45    #define CMJ CblasColMajor
46    #define NTR CblasNoTrans
47    #define TRN CblasTrans
48    #define CTR CblasConjTrans
49    #define UPP CblasUpper
50    #define LOW CblasLower
51    #define NUN CblasNonUnit
52    #define UNT CblasUnit
53    #define LFT CblasLeft
54    #define RGT CblasRight
55    
56    #if !defined(R_VERSION) || R_VERSION < R_Version(2, 7, 0)
57    char La_norm_type(const char *typstr);
58    char La_rcond_type(const char *typstr);
59    #endif
60    
 char norm_type(char *typstr);  
 char rcond_type(char *typstr);  
61  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
62  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
63  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
64  SEXP get_factorization(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
65  SEXP set_factorization(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
66  SEXP cscMatrix_set_Dim(SEXP x, int nrow);  
67  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  #if 0
68  void csc_sort_columns(int ncol, const int p[], int i[], double x[]);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
69  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  #endif  /* unused */
70                      const int Ti [], const int Tj [], const double Tx [],  
71                      char *Rclass);  /* int csc_unsorted_columns(int ncol, const int p[], const int i[]); */
72  SEXP csc_check_column_sorting(SEXP A);  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
73  void csc_components_transpose(int m, int n, int nnz,  /* SEXP csc_check_column_sorting(SEXP A); */
74                                const int xp[], const int xi[],  #if R_VERSION < R_Version(2, 10, 0)
75                                const double xx[],  SEXP Matrix_make_named(int TYP, const char **names);
76                                int ap[], int ai[], double ax[]);  #else
77  void ssc_symbolic_permute(int n, int upper, const int perm[],  # define Matrix_make_named Rf_mkNamed
78                            int Ap[], int Ai[]);  #endif
79  double *nlme_symmetrize(double *a, const int nc);  
80  void nlme_check_Lapack_error(int info, const char *laName);  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
81  SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  Rboolean equal_string_vectors(SEXP s1, SEXP s2);
82  SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);  
83    void d_packed_getDiag(double *dest, SEXP x, int n);
84                                  /* stored pointers to symbols */  void l_packed_getDiag(   int *dest, SEXP x, int n);
85                                  /* initialized in R_init_Matrix */  void tr_d_packed_getDiag(double *dest, SEXP x);
86  extern  void tr_l_packed_getDiag(   int *dest, SEXP x);
87    
88    SEXP Matrix_getElement(SEXP list, char *nm);
89    
90    #define PACKED_TO_FULL(TYPE)                                            \
91    TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
92                                 int n, enum CBLAS_UPLO uplo)
93    PACKED_TO_FULL(double);
94    PACKED_TO_FULL(int);
95    #undef PACKED_TO_FULL
96    
97    #define FULL_TO_PACKED(TYPE)                                            \
98    TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
99                                  enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
100    FULL_TO_PACKED(double);
101    FULL_TO_PACKED(int);
102    #undef FULL_TO_PACKED
103    
104    
105    extern   /* stored pointers to symbols initialized in R_init_Matrix */
106  #include "Syms.h"  #include "Syms.h"
107    
108    /* zero an array */
109    #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}
110    
111    /* number of elements in one triangle of a square matrix of order n */
112    #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
113    
114    /* duplicate the slot with name given by sym from src to dest */
115    
116    #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
117    
118    /* is not yet used: */
119    #define slot_nonNull_dup(dest, src, sym)                        \
120        if(GET_SLOT(src, sym) != R_NilValue)                        \
121            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
122    
123    #define slot_dup_if_has(dest, src, sym)                         \
124        if(R_has_slot(src, sym))                                    \
125            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
126    
127    /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
128     *       and hence don't have to be set ! */
129    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
130    
131    
132    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
133    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
134    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
135    
136    // Define this "Cholmod compatible" to some degree
137    enum x_slot_kind {x_pattern=-1, x_double=0, x_logical=1, x_integer=2, x_complex=3};
138    
139    /* should also work for "matrix" matrices: */
140    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
141                             (isReal(_x_) ? x_double : (isLogical(_x_) ? x_logical : -1)))
142    /* This one gives '0' also for integer "matrix" :*/
143    #define Real_KIND2(_x_) (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
144                             (isLogical(_x_) ? x_logical : 0))
145    
146    /* requires 'x' slot: */
147    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
148                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
149    
150    #define DECLARE_AND_GET_X_SLOT(__C_TYPE, __SEXP)        \
151        __C_TYPE *xx = __SEXP(GET_SLOT(x, Matrix_xSym))
152    
153    
154    /**
155     * Check for valid length of a packed triangular array and return the
156     * corresponding number of columns
157     *
158     * @param len length of a packed triangular array
159     *
160     * @return number of columns
161     */
162    static R_INLINE
163    int packed_ncol(int len)
164    {
165        int disc = 8 * len + 1;     /* discriminant */
166        int sqrtd = (int) sqrt((double) disc);
167    
168        if (len < 0 || disc != sqrtd * sqrtd)
169            error(_("invalid 'len' = %d in packed_ncol"));
170        return (sqrtd - 1)/2;
171    }
172    
173    /**
174     * Allocate an SEXP of given type and length, assign it as slot nm in
175     * the object, and return the SEXP.  The validity of this function
176     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
177     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
178     * GET_SLOT to ensure that the value returned is indeed the SEXP in
179     * the slot.
180     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
181     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
182     * and the R_do_slot* are in src/main/attrib.c
183     *
184     * @param obj object in which to assign the slot
185     * @param nm name of the slot, as an R name object
186     * @param type type of SEXP to allocate
187     * @param length length of SEXP to allocate
188     *
189     * @return SEXP of given type and length assigned as slot nm in obj
190     */
191    static R_INLINE
192    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
193    {
194        SEXP val = allocVector(type, length);
195    
196        SET_SLOT(obj, nm, val);
197        return val;
198    }
199    
200    /**
201     * Expand compressed pointers in the array mp into a full set of indices
202     * in the array mj.
203     *
204     * @param ncol number of columns (or rows)
205     * @param mp column pointer vector of length ncol + 1
206     * @param mj vector of length mp[ncol] to hold the result
207     *
208     * @return mj
209     */
210    static R_INLINE
211    int* expand_cmprPt(int ncol, const int mp[], int mj[])
212    {
213        int j;
214        for (j = 0; j < ncol; j++) {
215            int j2 = mp[j+1], jj;
216            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
217        }
218        return mj;
219    }
220    
221    /**
222     * Check if slot(obj, "x") contains any NA (or NaN).
223     *
224     * @param obj   a 'Matrix' object with an 'x' slot.
225     *
226     * @return Rboolean :== any(is.na(slot(obj, "x") )
227     */
228    static R_INLINE
229    Rboolean any_NA_in_x(SEXP obj)
230    {
231        double *x = REAL(GET_SLOT(obj, Matrix_xSym));
232        int i, n = LENGTH(GET_SLOT(obj, Matrix_xSym));
233        for(i=0; i < n; i++)
234            if(ISNAN(x[i])) return TRUE;
235        /* else */
236        return FALSE;
237    }
238    
239    
240    void make_d_matrix_triangular(double *x, SEXP from);
241    void make_i_matrix_triangular(   int *x, SEXP from);
242    
243    void make_d_matrix_symmetric(double *to, SEXP from);
244    void make_i_matrix_symmetric(   int *to, SEXP from);
245    
246    SEXP Matrix_expand_pointers(SEXP pP);
247    
248    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
249    SEXP dup_mMatrix_as_geMatrix (SEXP A);
250    
251    SEXP new_dgeMatrix(int nrow, int ncol);
252    SEXP m_encodeInd (SEXP ij, SEXP di, SEXP chk_bnds);
253    SEXP m_encodeInd2(SEXP i, SEXP j, SEXP di, SEXP chk_bnds);
254    
255    
256    static R_INLINE SEXP
257    mMatrix_as_dgeMatrix(SEXP A)
258    {
259        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
260    }
261    
262    static R_INLINE SEXP
263    mMatrix_as_geMatrix(SEXP A)
264    {
265        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
266    }
267    
268    /**
269     * Return the 0-based index of a string match in a vector of strings
270     * terminated by an empty string.  Returns -1 for no match.
271     *
272     * @param class string to match
273     * @param valid vector of possible matches terminated by an empty string
274     *
275     * @return index of match or -1 for no match
276     */
277    static R_INLINE int
278    Matrix_check_class(const char *class, char **valid)
279    {
280        int ans;
281        for (ans = 0; ; ans++) {
282            if (!strlen(valid[ans])) return -1;
283            if (!strcmp(class, valid[ans])) return ans;
284        }
285    }
286    
287    int Matrix_check_class_etc(SEXP x, char **valid);
288    int Matrix_check_class_and_super(SEXP x, char **valid, SEXP rho);
289    
290    #ifdef __cplusplus
291    }
292  #endif  #endif
293    
294    #endif /* MATRIX_MUTILS_H_ */

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