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Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/newick_8tab_8cpp_source.html below:

NCBI C++ ToolKit: src/algo/phy_tree/newick.tab.cpp Source File

42 #define YYSKELETON_NAME "yacc.c" 48 #define YYLSP_NEEDED 0 52 #define yyparse newickparse 53 #define yylex newicklex 54 #define yyerror newickerror 55 #define yylval newicklval 56 #define yychar newickchar 57 #define yydebug newickdebug 58 #define yynerrs newicknerrs 131 #define YYINITDEPTH 10000 140 #ifdef YYERROR_VERBOSE 141 # undef YYERROR_VERBOSE 142 # define YYERROR_VERBOSE 1 144 # define YYERROR_VERBOSE 0 147 #if ! defined (YYSTYPE) && ! defined (YYSTYPE_IS_DECLARED) 148 #line 56 "newick.ypp" 155 #line 153 "newick.tab.cpp" 156 # define yystype YYSTYPE 157 # define YYSTYPE_IS_DECLARED 1 158 # define YYSTYPE_IS_TRIVIAL 1 167 #line 165 "newick.tab.cpp" 169 #if ! defined (yyoverflow) || YYERROR_VERBOSE 173 # if YYSTACK_USE_ALLOCA 174 # define YYSTACK_ALLOC alloca 176 # ifndef YYSTACK_USE_ALLOCA 177 # if defined (alloca) || defined (_ALLOCA_H) 178 # define YYSTACK_ALLOC alloca 181 # define YYSTACK_ALLOC __builtin_alloca 187 # ifdef YYSTACK_ALLOC 189 # define YYSTACK_FREE(Ptr) do { ; } while (0) 191 # if defined (__STDC__) || defined (__cplusplus) 193 # define YYSIZE_T size_t 195 # define YYSTACK_ALLOC malloc 196 # define YYSTACK_FREE free 201 #if (! defined (yyoverflow) \ 202  && (! defined (__cplusplus) \ 203  || (YYSTYPE_IS_TRIVIAL))) 213 # define YYSTACK_GAP_MAXIMUM (sizeof (union yyalloc) - 1) 217 # define YYSTACK_BYTES(N) \ 218  ((N) * (sizeof (short) + sizeof (YYSTYPE)) \ 219  + YYSTACK_GAP_MAXIMUM) 225 # define YYCOPY(To, From, Count) \ 226  __builtin_memcpy (To, From, (Count) * sizeof (*(From))) 228 # define YYCOPY(To, From, Count) \ 232  for (yyi = 0; yyi < (Count); yyi++) \ 233  (To)[yyi] = (From)[yyi]; \ 244 # define YYSTACK_RELOCATE(Stack) \ 247  YYSIZE_T yynewbytes; \ 248  YYCOPY (&yyptr->Stack, Stack, yysize); \ 249  Stack = &yyptr->Stack; \ 250  yynewbytes = yystacksize * sizeof (*Stack) + YYSTACK_GAP_MAXIMUM; \ 251  yyptr += yynewbytes / sizeof (*yyptr); \ 257 #if defined (__STDC__) || defined (__cplusplus) 279 #define YYMAXUTOK 259 281 #define YYTRANSLATE(YYX) \ 282  ((unsigned int) (YYX) <= YYMAXUTOK ? yytranslate[YYX] : YYUNDEFTOK) 287

0, 2, 2, 2, 2, 2, 2, 2, 2, 2,

288

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

289

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

290

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

291

6, 7, 2, 2, 9, 2, 2, 2, 2, 2,

292

2, 2, 2, 2, 2, 2, 2, 2, 8, 5,

293

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

294

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

295

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

296

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

297

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

298

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

299

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

300

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

301

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

302

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

303

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

304

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

305

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

306

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

307

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

308

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

309

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

310

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

311

2, 2, 2, 2, 2, 2, 2, 2, 2, 2,

312

2, 2, 2, 2, 2, 2, 1, 2, 3, 4

318 static const unsigned char yyprhs

[] =

320

0, 0, 3, 6, 12, 16, 23, 28, 32, 35,

327

11, 0, -1, 12, 5, -1, 6, 13, 7, 8,

328

4, -1, 6, 13, 7, -1, 6, 13, 7, 3,

329

8, 4, -1, 6, 13, 7, 3, -1, 3, 8,

330

4, -1, 8, 4, -1, 3, -1, -1, 12, -1,

335 static const unsigned char yyrline

[] =

337

0, 70, 70, 76, 83, 89, 97, 104, 112, 120,

342 #if YYDEBUG || YYERROR_VERBOSE 345 static const char

*

const yytname

[] =

347  "$end"

,

"error"

,

"$undefined"

,

"LABEL"

,

"NUM"

,

"';'"

,

"'('"

,

"')'"

,

"':'"

,

348  "','"

,

"$accept"

,

"tree"

,

"node"

,

"nodelist"

, 0

355 static const unsigned short

yytoknum[] =

357

0, 256, 257, 258, 259, 59, 40, 41, 58, 44

362 static const unsigned char yyr1

[] =

364

0, 10, 11, 12, 12, 12, 12, 12, 12, 12,

369 static const unsigned char yyr2

[] =

371

0, 2, 2, 5, 3, 6, 4, 3, 2, 1,

380

10, 9, 10, 0, 0, 0, 0, 11, 0, 8,

381

1, 2, 7, 4, 10, 6, 0, 12, 0, 3,

393 #define YYPACT_NINF -8 396

-1, -7, -1, 5, 10, 6, 9, -8, -3, -8,

397

-8, -8, -8, 0, -1, 7, 12, -8, 13, -8,

411 #define YYTABLE_NINF -1 414

7, 6, 1, 15, 13, 2, 14, 3, 16, 9,

415

10, 11, 17, 12, 0, 18, 19, 20

420

2, 8, 3, 3, 7, 6, 9, 8, 8, 4,

421

0, 5, 14, 4, -1, 8, 4, 4

428

0, 3, 6, 8, 11, 12, 8, 12, 13, 4,

429

0, 5, 4, 7, 9, 3, 8, 12, 8, 4,

433 #if ! defined (YYSIZE_T) && defined (__SIZE_TYPE__) 434 # define YYSIZE_T __SIZE_TYPE__ 436 #if ! defined (YYSIZE_T) && defined (size_t) 437 # define YYSIZE_T size_t 439 #if ! defined (YYSIZE_T) 440 # if defined (__STDC__) || defined (__cplusplus) 442 # define YYSIZE_T size_t 445 #if ! defined (YYSIZE_T) 446 # define YYSIZE_T unsigned int 449 #define yyerrok (yyerrstatus = 0) 450 #define yyclearin (yychar = YYEMPTY) 454 #define YYACCEPT goto yyacceptlab 455 #define YYABORT goto yyabortlab 456 #define YYERROR goto yyerrlab1 462 #define YYFAIL goto yyerrlab 464 #define YYRECOVERING() (!!yyerrstatus) 466 #define YYBACKUP(Token, Value) \ 468  if (yychar == YYEMPTY && yylen == 1) \ 472  yytoken = YYTRANSLATE (yychar); \ 478  yyerror ("syntax error: cannot back up"

);\

484 #define YYERRCODE 256 489 #ifndef YYLLOC_DEFAULT 490 # define YYLLOC_DEFAULT(Current, Rhs, N) \ 491  Current.first_line = Rhs[1].first_line; \ 492  Current.first_column = Rhs[1].first_column; \ 493  Current.last_line = Rhs[N].last_line; \ 494  Current.last_column = Rhs[N].last_column; 500 # define YYLEX yylex (YYLEX_PARAM) 502 # define YYLEX yylex () 510 # define YYFPRINTF fprintf 513 # define YYDPRINTF(Args) \ 519 # define YYDSYMPRINT(Args) \ 525 # define YYDSYMPRINTF(Title, Token, Value, Location) \ 529  YYFPRINTF (stderr, "%s "

, Title); \

530

yysymprint (stderr, \

532

YYFPRINTF (stderr, "\n"); \

541 #if defined (__STDC__) || defined (__cplusplus) 552  for

(

; bottom <= top; ++bottom)

557 # define YY_STACK_PRINT(Bottom, Top) \ 560  yy_stack_print ((Bottom), (Top)); \ 568 #if defined (__STDC__) || defined (__cplusplus) 578  unsigned int

yylineno =

yyrline

[yyrule];

579  YYFPRINTF

(stderr,

"Reducing stack by rule %d (line %u), "

,

580

yyrule - 1, yylineno);

582  for

(yyi =

yyprhs

[yyrule]; 0 <=

yyrhs

[yyi]; yyi++)

587 # define YY_REDUCE_PRINT(Rule) \ 590  yy_reduce_print (Rule); \ 597 # define YYDPRINTF(Args) 598 # define YYDSYMPRINT(Args) 599 # define YYDSYMPRINTF(Title, Token, Value, Location) 600 # define YY_STACK_PRINT(Bottom, Top) 601 # define YY_REDUCE_PRINT(Rule) 607 # define YYINITDEPTH 200 622 # define YYMAXDEPTH 10000 630 # if defined (__GLIBC__) && defined (_STRING_H) 631 # define yystrlen strlen 635 # if defined (__STDC__) || defined (__cplusplus) 642  const char

*yys = yystr;

644  while

(*yys++ !=

'\0'

)

647  return

yys - yystr - 1;

653 # if defined (__GLIBC__) && defined (_STRING_H) && defined (_GNU_SOURCE) 654 # define yystpcpy stpcpy 659 # if defined (__STDC__) || defined (__cplusplus) 660 yystpcpy

(

char

*yydest,

const char

*yysrc)

668  const char

*yys = yysrc;

670  while

((*yyd++ = *yys++) !=

'\0'

)

687 #if defined (__STDC__) || defined (__cplusplus) 705

YYPRINT (yyoutput, yytoknum[yytype], *

yyvaluep

);

724 #if defined (__STDC__) || defined (__cplusplus) 749 # if defined (__STDC__) || defined (__cplusplus) 755 #if defined (__STDC__) || defined (__cplusplus) 780 # if defined (__STDC__) || defined (__cplusplus) 787 #if defined (__STDC__) || defined (__cplusplus) 826 #define YYPOPSTACK (yyvsp--, yyssp--) 839  YYDPRINTF

((stderr,

"Starting parse\n"

));

868  if

(yyss + yystacksize - 1 <= yyssp)

886

yyoverflow (

"parser stack overflow"

,

887

&yyss1, yysize *

sizeof

(*yyssp),

888

&yyvs1, yysize *

sizeof

(*yyvsp),

896 # ifndef YYSTACK_RELOCATE 915 # undef YYSTACK_RELOCATE 922

yyssp =

yyss

+ yysize - 1;

923

yyvsp =

yyvs

+ yysize - 1;

926  YYDPRINTF

((stderr,

"Stack size increased to %lu\n"

,

927

(

unsigned long int

) yystacksize));

929  if

(

yyss

+ yystacksize - 1 <= yyssp)

933  YYDPRINTF

((stderr,

"Entering state %d\n"

, yystate));

957  YYDPRINTF

((stderr,

"Reading a token: "

));

964  YYDPRINTF

((stderr,

"Now at end of input.\n"

));

1033

yyval = yyvsp[1-yylen];

1040 #line 70 "newick.ypp" 1047 #line 76 "newick.ypp" 1057 #line 83 "newick.ypp" 1066 #line 89 "newick.ypp" 1077 #line 97 "newick.ypp" 1087 #line 104 "newick.ypp" 1098 #line 112 "newick.ypp" 1109 #line 120 "newick.ypp" 1119 #line 127 "newick.ypp" 1129 #line 136 "newick.ypp" 1137 #line 141 "newick.ypp" 1148 #line 1146 "newick.tab.cpp" 1166  if

(0 <= yystate && yystate <=

YYLAST

&&

yycheck

[yystate] == *yyssp)

1195  for

(yyx = yyn < 0 ? -yyn : 0;

1196

yyx < (

int

) (

sizeof

(

yytname

) /

sizeof

(

char

*)); yyx++)

1199

yysize +=

yystrlen

(

"syntax error, unexpected "

) + 1;

1204  char

*yyp =

yystpcpy

(yymsg,

"syntax error, unexpected "

);

1210  for

(yyx = yyn < 0 ? -yyn : 0;

1211

yyx < (

int

) (

sizeof

(

yytname

) /

sizeof

(

char

*));

1215  const char

*yyq = ! yycount ?

", expecting "

:

" or "

;

1225  yyerror

(

"syntax error; also virtual memory exhausted"

);

1234  if

(yyerrstatus == 3)

1245  while

(

yyss

< yyssp)

1272 #if defined (__GNUC_MINOR__) && 2093 <= (__GNUC__ * 1000 + __GNUC_MINOR__) \ 1273  && !defined __cplusplus 1274

__attribute__ ((__unused__))

1316  YYDPRINTF

((stderr,

"Shifting error token, "

));

1344  yyerror

(

"parser stack overflow"

);

1358 #line 148 "newick.ypp" 1367

vector<TPhyTreeNode*> del_list;

1369  if

(!(*iter)->GetParent()) {

1370

del_list.push_back(*iter);

1373  ITERATE

(vector<TPhyTreeNode*>, iter, del_list) {

1378  throw

runtime_error(

string

(

"error parsing Newick format tree file: "

)

static void yy_reduce_print(int yyrule)

static void yysymprint(FILE *yyoutput, int yytype, CBDB_Query::TQueryClause **yyvaluep)

static const unsigned char yyrline[]

static void yy_stack_print(short *bottom, short *top)

static const yysigned_char yyrhs[]

static const char *const yytname[]

static const unsigned char yyprhs[]

definition of a Culling tree

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

void AddNode(TTreeType *subnode)

Add new subnode.

const TValue & GetValue(void) const

Return node's value.

unsigned int

A callback function used to compare two keys in a database.

Magic spell ;-) needed for some weird compilers... very empiric.

static TPhyTreeNode * g_Tree

void newick_flex_reset(void)

#define YYDSYMPRINTF(Title, Token, Value, Location)

static const unsigned char yytable[]

vector< TPhyTreeNode * > g_NodeList

static const unsigned char yydefact[]

static void yydestruct(yytype, yyvaluep) int yytype

#define YY_REDUCE_PRINT(Rule)

static const yysigned_char yypact[]

#define YY_STACK_PRINT(Bottom, Top)

static const unsigned char yyr2[]

static const unsigned char yytranslate[]

static const yysigned_char yypgoto[]

static const yysigned_char yycheck[]

static const yysigned_char yydefgoto[]

static const unsigned char yystos[]

#define YYSTACK_RELOCATE(Stack)

CNcbiIstream * g_NewickIstr

static const unsigned char yyr1[]

TPhyTreeNode * ReadNewickTree(CNcbiIstream &is)

Newick format input.

CTreeNode< CPhyNodeData > TPhyTreeNode

static char * yystpcpy(char *yydest, const char *yysrc)

static unsigned int yystrlen(char *yystr) const

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