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

2 #define yy_create_buffer newick_create_buffer 3 #define yy_delete_buffer newick_delete_buffer 4 #define yy_scan_buffer newick_scan_buffer 5 #define yy_scan_string newick_scan_string 6 #define yy_scan_bytes newick_scan_bytes 7 #define yy_flex_debug newick_flex_debug 8 #define yy_init_buffer newick_init_buffer 9 #define yy_flush_buffer newick_flush_buffer 10 #define yy_load_buffer_state newick_load_buffer_state 11 #define yy_switch_to_buffer newick_switch_to_buffer 13 #define yyleng newickleng 14 #define yylex newicklex 15 #define yyout newickout 16 #define yyrestart newickrestart 17 #define yytext newicktext 19 #line 19 "lex.newick.cpp" 27 #define YY_FLEX_MAJOR_VERSION 2 28 #define YY_FLEX_MINOR_VERSION 5 78 #define YY_PROTO(proto) proto 80 #define YY_PROTO(proto) () 91 #define YY_SC_TO_UI(c) ((unsigned int) (unsigned char) c) 97 #define BEGIN yy_start = 1 + 2 * 103 #define YY_START ((yy_start - 1) / 2) 104 #define YYSTATE YY_START 107 #define YY_STATE_EOF(state) (YY_END_OF_BUFFER + state + 1) 110 #define YY_NEW_FILE yyrestart( yyin ) 112 #define YY_END_OF_BUFFER_CHAR 0 115 #define YY_BUF_SIZE 16384 122 #define EOB_ACT_CONTINUE_SCAN 0 123 #define EOB_ACT_END_OF_FILE 1 124 #define EOB_ACT_LAST_MATCH 2 146 *yy_cp = yy_hold_char; \ 147 YY_RESTORE_YY_MORE_OFFSET \ 148 yy_c_buf_p = yy_cp = yy_bp + n - YY_MORE_ADJ; \ 149 YY_DO_BEFORE_ACTION; \ 153 #define unput(c) yyunput( c, yytext_ptr ) 204 #define YY_BUFFER_NEW 0 205 #define YY_BUFFER_NORMAL 1 216 #define YY_BUFFER_EOF_PENDING 2 225 #define YY_CURRENT_BUFFER yy_current_buffer 254 #define YY_FLUSH_BUFFER yy_flush_buffer( yy_current_buffer ) 264 #define yy_new_buffer yy_create_buffer 266 #define yy_set_interactive(is_interactive) \ 268 if ( ! yy_current_buffer ) \ 269 yy_current_buffer = yy_create_buffer( yyin, YY_BUF_SIZE ); \ 270 yy_current_buffer->yy_is_interactive = is_interactive; \ 273 #define yy_set_bol(at_bol) \ 275 if ( ! yy_current_buffer ) \ 276 yy_current_buffer = yy_create_buffer( yyin, YY_BUF_SIZE ); \ 277 yy_current_buffer->yy_at_bol = at_bol; \ 280 #define YY_AT_BOL() (yy_current_buffer->yy_at_bol) 284 #define YY_SKIP_YYWRAP 289 #define yytext_ptr yytext 299 #define YY_DO_BEFORE_ACTION \ 300 yytext_ptr = yy_bp; \ 301 yyleng = (int) (yy_cp - yy_bp); \ 302 yy_hold_char = *yy_cp; \ 306 #define YY_NUM_RULES 7 307 #define YY_END_OF_BUFFER 8 310

4, 4, 4, 4, 8, 3, 2, 2, 6, 6,

311

5, 3, 3, 1, 3, 0, 4, 3, 1, 1,

317

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

318

1, 1, 2, 1, 1, 1, 1, 1, 1, 1,

319

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

320

1, 2, 1, 1, 1, 1, 1, 1, 4, 5,

321

5, 1, 6, 5, 6, 7, 1, 8, 8, 8,

322

8, 8, 8, 8, 8, 8, 8, 9, 5, 1,

323

1, 1, 1, 1, 1, 1, 1, 1, 10, 1,

324

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

325

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

326

5, 1, 5, 1, 1, 1, 1, 1, 1, 1,

328

10, 1, 1, 1, 1, 1, 1, 1, 1, 1,

329

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

330

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

331

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

332

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

333

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

334

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

335

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

336

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

337

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

339

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

340

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

341

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

342

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

343

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

349

1, 2, 2, 2, 2, 1, 1, 1, 2, 1

354

0, 0, 5, 0, 29, 0, 30, 30, 24, 30,

355

30, 7, 19, 16, 0, 21, 20, 0, 0, 13,

356

10, 18, 13, 0, 30, 16, 18

361

25, 1, 1, 3, 25, 26, 25, 25, 27, 25,

362

25, 26, 26, 12, 26, 27, 25, 13, 14, 13,

363

13, 27, 13, 23, 0, 25, 25

368

6, 7, 8, 9, 10, 6, 6, 6, 11, 6,

369

12, 13, 14, 18, 19, 23, 15, 24, 16, 16,

370

24, 17, 21, 22, 17, 21, 20, 17, 25, 5,

371

25, 25, 25, 25, 25, 25, 25, 25, 25, 25

376

1, 1, 1, 1, 1, 1, 1, 1, 1, 1,

377

3, 3, 3, 12, 12, 21, 26, 21, 27, 27,

378

23, 22, 20, 17, 16, 14, 13, 9, 5, 25,

379

25, 25, 25, 25, 25, 25, 25, 25, 25, 25

388 #define REJECT reject_used_but_not_detected 389 #define yymore() yymore_used_but_not_detected 390 #define YY_MORE_ADJ 0 391 #define YY_RESTORE_YY_MORE_OFFSET 433 #line 44 "newick.lpp" 439 #define YY_NO_UNPUT 1 449 #define YY_INPUT(buf, result, max_size) \ 451 result = CStreamUtils::Readsome(*g_NewickIstr, buf, max_size); \ 452 if (result == 0 && !*g_NewickIstr) { \ 457 #define YY_NEVER_INTERACTIVE 1 460 #line 461 "lex.newick.cpp" 466 #ifndef YY_SKIP_YYWRAP 475 static void

yyunput

YY_PROTO

((

int

char

*buf_ptr ));

479 static void

yy_flex_strncpy

YY_PROTO

((

char

yyconst char

int

));

482 #ifdef YY_NEED_STRLEN 488 static int

yyinput

YY_PROTO

((

void

));

495 static int

yy_start_stack_ptr = 0;

496 static int

yy_start_stack_depth = 0;

497 static int

*yy_start_stack = 0;

498 #ifndef YY_NO_PUSH_STATE 499 static void

yy_push_state

YY_PROTO

((

int

new_state ));

501 #ifndef YY_NO_POP_STATE 502 static void

yy_pop_state

YY_PROTO

((

void

));

504 #ifndef YY_NO_TOP_STATE 505 static int

yy_top_state

YY_PROTO

((

void

));

509 #define YY_NO_PUSH_STATE 1 510 #define YY_NO_POP_STATE 1 511 #define YY_NO_TOP_STATE 1 514 #ifdef YY_MALLOC_DECL 530 #ifndef YY_READ_BUF_SIZE 531 #define YY_READ_BUF_SIZE 8192 540 #define ECHO (void) fwrite( yytext, yyleng, 1, yyout ) 547 #define YY_INPUT(buf,result,max_size) \ 548 if ( yy_current_buffer->yy_is_interactive ) \ 551 for ( n = 0; n < max_size && \ 552 (c = getc( yyin )) != EOF && c != '\n'; ++n ) \ 555 buf[n++] = (char) c; \ 556 if ( c == EOF && ferror( yyin ) ) \ 557 YY_FATAL_ERROR( "input in flex scanner failed"

); \

560

else if ( ((result = fread( buf, 1, max_size, yyin )) == 0) \

561

&& ferror( yyin ) ) \

562

YY_FATAL_ERROR( "input in flex scanner failed" );

570 #define yyterminate() return YY_NULL 574 #ifndef YY_START_STACK_INCR 575 #define YY_START_STACK_INCR 25 579 #ifndef YY_FATAL_ERROR 580 #define YY_FATAL_ERROR(msg) yy_fatal_error( msg ) 587 #define YY_DECL int yylex YY_PROTO(( void )) 593 #ifndef YY_USER_ACTION 594 #define YY_USER_ACTION 599 #define YY_BREAK break; 602 #define YY_RULE_SETUP \ 608 char

yy_cp

, *yy_bp;

611 #line 75 "newick.lpp" 614 #line 615 "lex.newick.cpp" 699 #line 77 "newick.lpp" 708 #line 83 "newick.lpp" 713 #line 85 "newick.lpp" 716 for

(

unsigned int i

= 0;

g_Buffer

.size(); ++

) {

728 #line 97 "newick.lpp" 732 for

(

unsigned int i

= 1;

< strlen(

yytext

) - 1; ++

) {

745 #line 111 "newick.lpp" 753 #line 116 "newick.lpp" 758 #line 118 "newick.lpp" 761 #line 762 "lex.newick.cpp" 890 "fatal flex scanner internal error--no action found"

);

908 int

number_to_move,

;

913 "fatal flex scanner internal error--end of buffer missed"

);

939 for

(

= 0;

< number_to_move; ++

)

940

*(dest++) = *(

source

++);

953 while

( num_to_read <= 0 )

955 #ifdef YY_USES_REJECT 957 "input buffer overflow, can't enlarge buffer because scanner uses REJECT"

);

963 int

yy_c_buf_p_offset =

966 if

(

->yy_is_our_buffer )

968 int

new_size =

->yy_buf_size * 2;

971 b

->yy_buf_size +=

->yy_buf_size / 8;

973 b

->yy_buf_size *= 2;

975 b

->yy_ch_buf = (

char

978 b

->yy_buf_size + 2 );

984 if

( !

->yy_ch_buf )

986 "fatal error - scanner input buffer overflow"

);

1070 #ifdef YY_USE_PROTOS 1100 #ifdef YY_USE_PROTOS 1101 static void

yyunput(

int

char

*yy_bp )

1103 static void

yyunput( c, yy_bp )

1113 if

( yy_cp < yy_current_buffer->

yy_ch_buf

+ 2 )

1130 if

( yy_cp < yy_current_buffer->

yy_ch_buf

+ 2 )

1134

*--

yy_cp

= (char) c;

1145 static int

yyinput()

1217 #ifdef YY_USE_PROTOS 1232 #ifdef YY_USE_PROTOS 1262 #ifdef YY_USE_PROTOS 1275 #ifdef YY_USE_PROTOS 1287 YY_FATAL_ERROR

(

"out of dynamic memory in yy_create_buffer()"

);

1295 if

( !

->yy_ch_buf )

1296 YY_FATAL_ERROR

(

"out of dynamic memory in yy_create_buffer()"

);

1298 b

->yy_is_our_buffer = 1;

1306 #ifdef YY_USE_PROTOS 1319 if

(

->yy_is_our_buffer )

1326 #ifndef YY_ALWAYS_INTERACTIVE 1327 #ifndef YY_NEVER_INTERACTIVE 1328 extern int

isatty

YY_PROTO

((

int

));

1332 #ifdef YY_USE_PROTOS 1345 b

->yy_fill_buffer = 1;

1347 #if YY_ALWAYS_INTERACTIVE 1348 b

->yy_is_interactive = 1;

1350 #if YY_NEVER_INTERACTIVE 1351 b

->yy_is_interactive = 0;

1353 b

->yy_is_interactive =

file

? (isatty( fileno(

file

) ) > 0) : 0;

1359 #ifdef YY_USE_PROTOS 1379 b

->yy_buf_pos = &

->yy_ch_buf[0];

1389 #ifndef YY_NO_SCAN_BUFFER 1390 #ifdef YY_USE_PROTOS 1410 b

->yy_buf_size =

size

- 2;

1411 b

->yy_buf_pos =

->yy_ch_buf = base;

1412 b

->yy_is_our_buffer = 0;

1413 b

->yy_input_file = 0;

1414 b

->yy_n_chars =

->yy_buf_size;

1415 b

->yy_is_interactive = 0;

1417 b

->yy_fill_buffer = 0;

1427 #ifndef YY_NO_SCAN_STRING 1428 #ifdef YY_USE_PROTOS 1444 #ifndef YY_NO_SCAN_BYTES 1445 #ifdef YY_USE_PROTOS 1465 buf

[

] = bytes[

];

1476 b

->yy_is_our_buffer = 1;

1483 #ifndef YY_NO_PUSH_STATE 1484 #ifdef YY_USE_PROTOS 1485 static void

yy_push_state(

int

new_state )

1487 static void

yy_push_state( new_state )

1491 if

( yy_start_stack_ptr >= yy_start_stack_depth )

1496

new_size = yy_start_stack_depth *

sizeof

(

int

);

1498 if

( ! yy_start_stack )

1503

(

void

*) yy_start_stack, new_size );

1505 if

( ! yy_start_stack )

1507 "out of memory expanding start-condition stack"

);

1510

yy_start_stack[yy_start_stack_ptr++] =

YY_START

;

1517 #ifndef YY_NO_POP_STATE 1518 static void

yy_pop_state()

1520 if

( --yy_start_stack_ptr < 0 )

1523 BEGIN

(yy_start_stack[yy_start_stack_ptr]);

1528 #ifndef YY_NO_TOP_STATE 1529 static int

yy_top_state()

1531 return

yy_start_stack[yy_start_stack_ptr - 1];

1535 #ifndef YY_EXIT_FAILURE 1536 #define YY_EXIT_FAILURE 2 1539 #ifdef YY_USE_PROTOS 1546

(void) fprintf( stderr,

"%s\n"

msg

);

1559 yytext[yyleng] = yy_hold_char; \ 1560 yy_c_buf_p = yytext + n; \ 1561 yy_hold_char = *yy_c_buf_p; \ 1562 *yy_c_buf_p = '\0'; \ 1571 #ifdef YY_USE_PROTOS 1572 static void

yy_flex_strncpy(

char

*s1,

yyconst char

*s2,

int n

)

1574 static void

yy_flex_strncpy( s1, s2,

)

1581 for

(

= 0;

; ++

)

1586 #ifdef YY_NEED_STRLEN 1587 #ifdef YY_USE_PROTOS 1588 static int

yy_flex_strlen(

yyconst char

*s )

1590 static int

yy_flex_strlen( s )

1595 for

(

= 0; s[

]; ++

)

1603 #ifdef YY_USE_PROTOS 1613 #ifdef YY_USE_PROTOS 1628 return

(

void

*) realloc( (

char

*) ptr,

size

);

1631 #ifdef YY_USE_PROTOS 1648 #line 118 "newick.lpp"

int main(int argc, const char *argv[])

IO_PREFIX::istream CNcbiIstream

Portable alias for istream.

unsigned int

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

#define yy_load_buffer_state

void newick_flex_reset(void)

static yy_state_type yy_last_accepting_state

#define YY_START_STACK_INCR

static int yy_did_buffer_switch_on_eof

static short int yy_accept[26]

static yy_state_type yy_try_NUL_trans()

struct yy_buffer_state * YY_BUFFER_STATE

static void yy_fatal_error()

#define YY_RESTORE_YY_MORE_OFFSET

#define EOB_ACT_END_OF_FILE

static short int yy_nxt[41]

static int yy_get_next_buffer()

#define yy_switch_to_buffer

static void * yy_flex_alloc()

static void yy_flex_free()

static short int yy_def[28]

#define YY_INPUT(buf, result, max_size)

#define YY_STATE_EOF(state)

#define YY_END_OF_BUFFER_CHAR

#define YY_FATAL_ERROR(msg)

static yy_state_type yy_get_previous_state()

static short int yy_chk[41]

#define YY_DO_BEFORE_ACTION

static short int yy_base[28]

#define EOB_ACT_LAST_MATCH

CNcbiIstream * g_NewickIstr

#define YY_BUFFER_EOF_PENDING

#define EOB_ACT_CONTINUE_SCAN

static YY_BUFFER_STATE yy_current_buffer

static void * yy_flex_realloc()

static char * yy_last_accepting_cpos

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

const CharType(& source)[N]

static SLJIT_INLINE sljit_ins msg(sljit_gpr r, sljit_s32 d, sljit_gpr x, sljit_gpr b)

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