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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 2647, Mon Feb 21 10:57:51 2011 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    
 char norm_type(char *typstr);  
 char rcond_type(char *typstr);  
56  double get_double_by_name(SEXP obj, char *nm);  double get_double_by_name(SEXP obj, char *nm);
57  SEXP set_double_by_name(SEXP obj, double val, char *nm);  SEXP set_double_by_name(SEXP obj, double val, char *nm);
58  SEXP as_det_obj(double val, int log, int sign);  SEXP as_det_obj(double val, int log, int sign);
59  SEXP get_factorization(SEXP obj, char *nm);  SEXP get_factors(SEXP obj, char *nm);
60  SEXP set_factorization(SEXP obj, SEXP val, char *nm);  SEXP set_factors(SEXP obj, SEXP val, char *nm);
61  SEXP cscMatrix_set_Dim(SEXP x, int nrow);  
62  int csc_unsorted_columns(int ncol, const int p[], const int i[]);  #if 0
63  void csc_sort_columns(int ncol, const int p[], int i[], double x[]);  SEXP dgCMatrix_set_Dim(SEXP x, int nrow);
64  SEXP triple_as_SEXP(int nrow, int ncol, int nz,  #endif  /* unused */
65                      const int Ti [], const int Tj [], const double Tx [],  
66                      char *Rclass);  /* int csc_unsorted_columns(int ncol, const int p[], const int i[]); */
67  SEXP csc_check_column_sorting(SEXP A);  /* void csc_sort_columns(int ncol, const int p[], int i[], double x[]); */
68  void csc_components_transpose(int m, int n, int nnz,  /* SEXP csc_check_column_sorting(SEXP A); */
69                                const int xp[], const int xi[],  
70                                const double xx[],  SEXP check_scalar_string(SEXP sP, char *vals, char *nm);
71                                int ap[], int ai[], double ax[]);  Rboolean equal_string_vectors(SEXP s1, SEXP s2);
72  void ssc_symbolic_permute(int n, int upper, const int perm[],  
73                            int Ap[], int Ai[]);  void d_packed_getDiag(double *dest, SEXP x, int n);
74  double *nlme_symmetrize(double *a, const int nc);  void l_packed_getDiag(   int *dest, SEXP x, int n);
75  void nlme_check_Lapack_error(int info, const char *laName);  void tr_d_packed_getDiag(double *dest, SEXP x);
76  SEXP nlme_replaceSlot(SEXP obj, SEXP names, SEXP value);  void tr_l_packed_getDiag(   int *dest, SEXP x);
77  SEXP nlme_weight_matrix_list(SEXP MLin, SEXP wts, SEXP adjst, SEXP MLout);  
78    SEXP Matrix_getElement(SEXP list, char *nm);
79                                  /* stored pointers to symbols */  
80                                  /* initialized in R_init_Matrix */  #define PACKED_TO_FULL(TYPE)                                            \
81  extern  TYPE *packed_to_full_ ## TYPE(TYPE *dest, const TYPE *src,              \
82                                 int n, enum CBLAS_UPLO uplo)
83    PACKED_TO_FULL(double);
84    PACKED_TO_FULL(int);
85    #undef PACKED_TO_FULL
86    
87    #define FULL_TO_PACKED(TYPE)                                            \
88    TYPE *full_to_packed_ ## TYPE(TYPE *dest, const TYPE *src, int n,       \
89                                  enum CBLAS_UPLO uplo, enum CBLAS_DIAG diag)
90    FULL_TO_PACKED(double);
91    FULL_TO_PACKED(int);
92    #undef FULL_TO_PACKED
93    
94    
95    extern   /* stored pointers to symbols initialized in R_init_Matrix */
96  #include "Syms.h"  #include "Syms.h"
97    
98    /* zero an array */
99    #define AZERO(x, n) {int _I_, _SZ_ = (n); for(_I_ = 0; _I_ < _SZ_; _I_++) (x)[_I_] = 0;}
100    
101    /* number of elements in one triangle of a square matrix of order n */
102    #define PACKED_LENGTH(n)   ((n) * ((n) + 1))/2
103    
104    /* duplicate the slot with name given by sym from src to dest */
105    
106    #define slot_dup(dest, src, sym)  SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
107    
108    /* is not yet used: */
109    #define slot_nonNull_dup(dest, src, sym)                        \
110        if(GET_SLOT(src, sym) != R_NilValue)                        \
111            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
112    
113    #define slot_dup_if_has(dest, src, sym)                         \
114        if(R_has_slot(src, sym))                                    \
115            SET_SLOT(dest, sym, duplicate(GET_SLOT(src, sym)))
116    
117    /* TODO: Make this faster for the case where dimnames = list(NULL,NULL)
118     *       and hence don't have to be set ! */
119    #define SET_DimNames(dest, src) slot_dup(dest, src, Matrix_DimNamesSym)
120    
121    
122    #define uplo_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_uploSym), 0))
123    #define diag_P(_x_) CHAR(STRING_ELT(GET_SLOT(_x_, Matrix_diagSym), 0))
124    #define class_P(_x_) CHAR(asChar(getAttrib(_x_, R_ClassSymbol)))
125    
126    // Define this "Cholmod compatible" to some degree
127    enum x_slot_kind {x_pattern=-1, x_double=0, x_logical=1, x_integer=2, x_complex=3};
128    
129    /* should also work for "matrix" matrices: */
130    #define Real_KIND(_x_)  (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
131                             (isReal(_x_) ? x_double : (isLogical(_x_) ? x_logical : -1)))
132    /* This one gives '0' also for integer "matrix" :*/
133    #define Real_KIND2(_x_) (IS_S4_OBJECT(_x_) ? Real_kind(_x_) : \
134                             (isLogical(_x_) ? x_logical : 0))
135    
136    /* requires 'x' slot: */
137    #define Real_kind(_x_)  (isReal(GET_SLOT(_x_, Matrix_xSym)) ? 0 :       \
138                             (isLogical(GET_SLOT(_x_, Matrix_xSym)) ? 1 : -1))
139    
140    #define DECLARE_AND_GET_X_SLOT(__C_TYPE, __SEXP)        \
141        __C_TYPE *xx = __SEXP(GET_SLOT(x, Matrix_xSym))
142    
143    
144    /**
145     * Check for valid length of a packed triangular array and return the
146     * corresponding number of columns
147     *
148     * @param len length of a packed triangular array
149     *
150     * @return number of columns
151     */
152    static R_INLINE
153    int packed_ncol(int len)
154    {
155        int disc = 8 * len + 1;     /* discriminant */
156        int sqrtd = (int) sqrt((double) disc);
157    
158        if (len < 0 || disc != sqrtd * sqrtd)
159            error(_("invalid 'len' = %d in packed_ncol"));
160        return (sqrtd - 1)/2;
161    }
162    
163    /**
164     * Allocate an SEXP of given type and length, assign it as slot nm in
165     * the object, and return the SEXP.  The validity of this function
166     * depends on SET_SLOT not duplicating val when NAMED(val) == 0.  If
167     * this behavior changes then ALLOC_SLOT must use SET_SLOT followed by
168     * GET_SLOT to ensure that the value returned is indeed the SEXP in
169     * the slot.
170     * NOTE:  GET_SLOT(x, what)        :== R_do_slot       (x, what)
171     * ----   SET_SLOT(x, what, value) :== R_do_slot_assign(x, what, value)
172     * and the R_do_slot* are in src/main/attrib.c
173     *
174     * @param obj object in which to assign the slot
175     * @param nm name of the slot, as an R name object
176     * @param type type of SEXP to allocate
177     * @param length length of SEXP to allocate
178     *
179     * @return SEXP of given type and length assigned as slot nm in obj
180     */
181    static R_INLINE
182    SEXP ALLOC_SLOT(SEXP obj, SEXP nm, SEXPTYPE type, int length)
183    {
184        SEXP val = allocVector(type, length);
185    
186        SET_SLOT(obj, nm, val);
187        return val;
188    }
189    
190    /**
191     * Expand compressed pointers in the array mp into a full set of indices
192     * in the array mj.
193     *
194     * @param ncol number of columns (or rows)
195     * @param mp column pointer vector of length ncol + 1
196     * @param mj vector of length mp[ncol] to hold the result
197     *
198     * @return mj
199     */
200    static R_INLINE
201    int* expand_cmprPt(int ncol, const int mp[], int mj[])
202    {
203        int j;
204        for (j = 0; j < ncol; j++) {
205            int j2 = mp[j+1], jj;
206            for (jj = mp[j]; jj < j2; jj++) mj[jj] = j;
207        }
208        return mj;
209    }
210    
211    /**
212     * Check if slot(obj, "x") contains any NA (or NaN).
213     *
214     * @param obj   a 'Matrix' object with an 'x' slot.
215     *
216     * @return Rboolean :== any(is.na(slot(obj, "x") )
217     */
218    static R_INLINE
219    Rboolean any_NA_in_x(SEXP obj)
220    {
221        double *x = REAL(GET_SLOT(obj, Matrix_xSym));
222        int i, n = LENGTH(GET_SLOT(obj, Matrix_xSym));
223        for(i=0; i < n; i++)
224            if(ISNAN(x[i])) return TRUE;
225        /* else */
226        return FALSE;
227    }
228    
229    
230    void make_d_matrix_triangular(double *x, SEXP from);
231    void make_i_matrix_triangular(   int *x, SEXP from);
232    
233    void make_d_matrix_symmetric(double *to, SEXP from);
234    void make_i_matrix_symmetric(   int *to, SEXP from);
235    
236    SEXP Matrix_expand_pointers(SEXP pP);
237    
238    SEXP dup_mMatrix_as_dgeMatrix(SEXP A);
239    SEXP dup_mMatrix_as_geMatrix (SEXP A);
240    
241    SEXP new_dgeMatrix(int nrow, int ncol);
242    SEXP m_encodeInd (SEXP ij, SEXP di, SEXP chk_bnds);
243    SEXP m_encodeInd2(SEXP i, SEXP j, SEXP di, SEXP chk_bnds);
244    
245    
246    static R_INLINE SEXP
247    mMatrix_as_dgeMatrix(SEXP A)
248    {
249        return strcmp(class_P(A), "dgeMatrix") ? dup_mMatrix_as_dgeMatrix(A) : A;
250    }
251    
252    static R_INLINE SEXP
253    mMatrix_as_geMatrix(SEXP A)
254    {
255        return strcmp(class_P(A) + 1, "geMatrix") ? dup_mMatrix_as_geMatrix(A) : A;
256    }
257    
258    /**
259     * Return the 0-based index of a string match in a vector of strings
260     * terminated by an empty string.  Returns -1 for no match.
261     *
262     * @param class string to match
263     * @param valid vector of possible matches terminated by an empty string
264     *
265     * @return index of match or -1 for no match
266     */
267    static R_INLINE int
268    Matrix_check_class(char *class, const char **valid)
269    {
270        int ans;
271        for (ans = 0; ; ans++) {
272            if (!strlen(valid[ans])) return -1;
273            if (!strcmp(class, valid[ans])) return ans;
274        }
275    }
276    
277    /**
278     * These are the ones users should use -- is() versions, also looking
279     * at super classes:
280     */
281    int Matrix_check_class_etc(SEXP x, const char **valid);
282    #if R_VERSION < R_Version(2, 13, 0)
283    int Matrix_check_class_and_super(SEXP x, const char **valid, SEXP rho);
284    #else
285    # define Matrix_check_class_and_super R_check_class_and_super
286    #endif
287    
288    #ifdef __cplusplus
289    }
290  #endif  #endif
291    
292    #endif /* MATRIX_MUTILS_H_ */

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