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[0] ==

'\n'

)) {

269

finfo.

pos

= (size_t)ftell(

);

270 if

(! fgets(finfo.

sizeof

(finfo.

) - 1,

))

276 auto n

= strlen(finfo.

);

279 if

(finfo.

[

] !=

'\n'

&& finfo.

[

] !=

'\r'

) {

282

finfo.

[

] = 0;

285 return

(end_of_file);

291 const char

* p =

nullptr

;

300 for

(p = fbuf.

current

, q = res,

= 0;

;

++, p++) {

302 if

(*p ==

'\n'

|| *p ==

'\r'

) {

316 bool

end_of_file =

false

;

319 while

(! end_of_file && (finfo.

[0] ==

'\n'

)) {

327 return

(end_of_file);

348 return

(end_of_file);

354 return SkipTitle

(

, finfo, keyword.data(), keyword.size());

361 const char

* p = keyword.data();

362 size_t len

= keyword.size();

381 const char

* p = locus;

385 for

(; *p !=

'\0'

; p++) {

386 if

((*p >=

'0'

&& *p <=

'9'

) || (*p >=

'A'

&& *p <=

'Z'

) ||

389 if

(((*p >=

'a'

&& *p <=

'z'

) || *p ==

'_'

|| *p ==

'-'

|| *p ==

'('

390

*p ==

')'

|| *p ==

'/'

) &&

398 return

(*p !=

'\0'

);

423 bool

underscore =

false

;

427 for

(p = locus, x = y = 0; *p !=

'\0'

; p++) {

428 if

((*p >=

'0'

&& *p <=

'9'

) || (*p >=

'A'

&& *p <=

'Z'

)) {

433

}

else if

(*p ==

'_'

)

439 if

(*p !=

'\0'

|| x == 0 || y == 0) {

456 if

(date[2] ==

'-'

&& date[6] ==

'-'

469 static const

vector<string_view> strandSpecs = {

470 " "

"ss-"

"ds-"

"ms-" 473 string

compare(

);

475 for

(

unsigned i

= 0;

< strandSpecs.size(); ++

) {

476 if

(compare.starts_with(strandSpecs[

])) {

503 static const

vector<string_view> topologies = {

504 " "

"linear "

"circular "

"tandem " 507 string

compare(

);

509 for

(

unsigned i

= 0;

< topologies.size(); ++

) {

510 if

(compare.starts_with(topologies[

])) {

611 if

(

.starts_with(

"NODATE"

sv))

614 if

(

.size() > 11 &&

[11] !=

'\n'

[11] !=

' '

639 for

(p++; *p ==

' '

;)

676 static

string_view::const_iterator

678

string_view::const_iterator current_it)

680 return

find_if(current_it, tempString.end(),

isSpace

);

684 static

string_view::const_iterator

686

string_view::const_iterator current_it)

688 return

find_if_not(current_it, tempString.end(),

isSpace

);

702 if

(locusLine.substr(0, 5) !=

"LOCUS"

sv) {

708 if

(it == locusLine.end()) {

713 if

(it == locusLine.end()) {

719 if

(it == locusLine.end()) {

738 if

((space_it - it) == 3) {

739 auto

currentSubstr = locusLine.substr(it - begin(locusLine), 3);

740 if

(currentSubstr ==

"ss-"

sv ||

741

currentSubstr ==

"ds-"

sv ||

742

currentSubstr ==

"ms-"

sv) {

754 if

(it != locusLine.end()) {

761 if

(it != locusLine.end()) {

768 if

(it != locusLine.end()) {

804 bool

badlocus =

false

;

805 if

(tokens.num > 2) {

810 if

(

StringLen

(p) > 78 && p[28] ==

' '

&& p[63] ==

' '

&& p[67] ==

' '

) {

829 auto

ptr = tokens.list.begin();

832 next

(ptr) != tokens.list.end() && *

(ptr) ==

"SV"

s) {

833 for

(

= 0, p = finfo.

; *p !=

'\0'

; p++)

834 if

(*p ==

';'

&& p[1] ==

' '

)

838 if

(! ptr->empty() && ptr->back() ==

';'

)

844 if

(

!= 6 || (tokens.num != 10 && tokens.num != 11)) {

861 auto

it =

(ptr);

862 if

(it == tokens.list.end() || it->empty() ||

895 auto

it = tokens.list.begin();

896 for

(

= 1;

< tokens.num; ++

)

903 auto

it = tokens.list.begin();

904 for

(

= 1;

< j; ++

)

946 if

|| *

'\0'

)

950 if

'0'

&& *

'9'

)

961 auto

pos =

.find_last_of(

"0123456789"

);

962 if

(pos != string::npos) {

963 str

.resize(pos + 1);

987 return

(c >=

'A'

&& c <=

'Z'

);

992 const Char

* p = acnum;

994 if

(! p || *p ==

'\0'

)

1018 if

(

(p[7]) && p[8] ==

'S'

1026 if

(

(p[5]) && p[6] ==

'S'

1045 if

(

== 0 || ! accpref)

1048 if

(2 <

< 10)

1051 const char

= accpref;

1052 for

(; *

;

++) {

1067 else if

(accformat == 8)

1069 else if

(accformat == 4)

1074 if

(p[0] >=

'0'

&& p[0] <=

'9'

&& p[1] >=

'0'

&& p[1] <=

'9'

) {

1075 for

(p += 2; *p ==

'0'

;)

1088 if

(accession.length() < 13 ||

1089

accession.length() > 15 ||

1090

accession[6] !=

'S'

) {

1095 if

(any_of(begin(accession),

1096

begin(accession) + 4,

1097

[](

const char

c) {

return

isalpha

(c); })) {

1102 if

(accession[4]) ||

1111 if

(any_of(begin(accession) + 7,

1113

[](

const char

c) {

return

(c); })) {

1118 if

(all_of(begin(accession) + 7,

1120

[](

const char

c) {

return

c ==

'0'

; })) {

1129 if

(initialType == -1) {

1133 if

(accession[0] ==

'G'

)

1135 switch

(initialType) {

1147 if

(accession[0] ==

'K'

|| accession[0] ==

'T'

) {

1148 switch

(initialType) {

1160 if

(initialType == 1) {

1161 if

(accession[0] ==

'I'

) {

1164 if

(accession[0] ==

'H'

) {

1194 auto

length = accession.length();

1198

all_of(begin(accession) + 2, end(accession), [](

const char

c) {

return isdigit

(c); })) {

1202 if

(length > 12 && length < 16 && accession[6] ==

'S'

) {

1209 if

(accession.substr(0, 3) ==

"NZ_"

sv) {

1210

accession = accession.substr(3);

1212

length = accession.length();

1213 if

(length < 12 || length > 17) {

1217 if

(

(accession[4])) {

1218 if

(all_of(begin(accession), begin(accession) + 4, [](

const char

c) {

return isalpha

(c); }) &&

1219

all_of(begin(accession) + 4, end(accession), [](

const char

c) {

return isdigit

(c); })) {

1222 if

(any_of(begin(accession) + 6, end(accession), [](

const char

c) {

return

c !=

'0'

; })) {

1224

}

else if

(accession[4] ==

'0'

&& accession[5] ==

'0'

) {

1235 if

(all_of(begin(accession), begin(accession) + 6, [](

const char

c) {

return isalpha

(c); }) &&

1236

all_of(begin(accession) + 6, end(accession), [](

const char

c) {

return isdigit

(c); })) {

1238 if

(any_of(begin(accession) + 8, end(accession), [](

const char

c) {

return

c !=

'0'

; })) {

1242 if

(accession[6] ==

'0'

&& accession[7] ==

'0'

) {

1256 if

(! acc || acc[0] ==

'\0'

)

1267 return

nullptr

);

1270 if

(acc[0] <

'A'

|| acc[0] >

'Z'

|| acc[1] <

'0'

|| acc[1] >

'9'

1271

((acc[3] <

'0'

|| acc[3] >

'9'

) && (acc[3] <

'A'

|| acc[3] >

'Z'

)) ||

1272

((acc[4] <

'0'

|| acc[4] >

'9'

) && (acc[4] <

'A'

|| acc[4] >

'Z'

)) ||

1273

acc[5] <

'0'

|| acc[5] >

'9'

)

1276 if

(acc[0] >=

'O'

&& acc[0] <=

'Q'

) {

1277 if

((acc[2] <

'0'

|| acc[2] >

'9'

) && (acc[2] <

'A'

|| acc[2] >

'Z'

))

1279

}

else if

(acc[2] <

'A'

|| acc[2] >

'Z'

)

1285 if

(acc[0] >=

'O'

&& acc[0] <=

'Q'

)

1288 if

(acc[6] <

'A'

|| acc[6] >

'Z'

|| acc[9] <

'0'

|| acc[9] >

'9'

1289

((acc[7] <

'A'

|| acc[7] >

'Z'

) && (acc[7] <

'0'

|| acc[7] >

'9'

)) ||

1290

((acc[8] <

'A'

|| acc[8] >

'Z'

) && (acc[8] <

'0'

|| acc[8] >

'9'

)))

1318 const char

* priacc,

1332 auto

tbp = tokens.

list

.begin();

1336 if

((priformat == 3 || priformat == 4 || priformat == 8) &&

1343 for

(; tbp != tokens.

list

.end(); ++tbp) {

1345 if

(acnum[0] ==

'-'

&& acnum[1] ==

'\0'

)

1348 if

(skip == 2 &&

count

== 0)

1349

accformat = priformat;

1354 if

(acnum[

- 1] ==

';'

) {

1356

acnum[

] =

'\0'

;

1359 if

(accformat == 1) {

1361

}

else if

(accformat == 2) {

1363

}

else if

(accformat == 3) {

1365

}

else if

(accformat == 8) {

1367

}

else if

(accformat == 4) {

1369

}

else if

(accformat == 5) {

1371

}

else if

(accformat == 6) {

1372

badac = (

!= 11 || acnum[0] !=

'N'

|| acnum[1] !=

'Z'

1373

acnum[2] !=

'_'

|| acnum[3] <

'A'

|| acnum[3] >

'Z'

1374

acnum[4] <

'A'

|| acnum[4] >

'Z'

) ||

1376

}

else if

(accformat == 7) {

1378

}

else if

(accformat == 9) {

1380

}

else if

(accformat == 0) {

1381 if

(

!= 6 &&

!= 10)

1402 if

(skip == 2 &&

count

== 0 && ! iswgs &&

1403

(accformat == 3 || accformat == 4 || accformat == 8)) {

1416 if

(acc.length() == 2) {

1418 if

(((acc ==

"AR"

sv) || (acc ==

"DZ"

sv) ||

1419

(acc ==

"EA"

sv) || (acc ==

"GC"

sv) ||

1420

(acc ==

"GP"

sv) || (acc ==

"GV"

sv) ||

1421

(acc ==

"GX"

sv) || (acc ==

"GY"

sv) ||

1422

(acc ==

"GZ"

sv) || (acc ==

"HJ"

sv) ||

1423

(acc ==

"HK"

sv) || (acc ==

"HL"

sv) ||

1424

(acc ==

"KH"

sv) || (acc ==

"MI"

sv) ||

1425

(acc ==

"MM"

sv) || (acc ==

"MO"

sv) ||

1426

(acc ==

"MV"

sv) || (acc ==

"MX"

sv) ||

1427

(acc ==

"MY"

sv) || (acc ==

"OO"

sv) ||

1428

(acc ==

"OS"

sv) || (acc ==

"OT"

sv) ||

1429

(acc ==

"PR"

sv) || (acc ==

"PT"

sv) ||

1434 if

(((acc ==

"AX"

sv) || (acc ==

"CQ"

sv) ||

1435

(acc ==

"CS"

sv) || (acc ==

"FB"

sv) ||

1436

(acc ==

"HA"

sv) || (acc ==

"HB"

sv) ||

1437

(acc ==

"HC"

sv) || (acc ==

"HD"

sv) ||

1438

(acc ==

"HH"

sv) || (acc ==

"GM"

sv) ||

1439

(acc ==

"GN"

sv) || (acc ==

"JA"

sv) ||

1440

(acc ==

"JB"

sv) || (acc ==

"JC"

sv) ||

1441

(acc ==

"JD"

sv) || (acc ==

"JE"

sv) ||

1442

(acc ==

"HI"

sv) || (acc ==

"LP"

sv) ||

1443

(acc ==

"LQ"

sv) || (acc ==

"MP"

sv) ||

1444

(acc ==

"MQ"

sv) || (acc ==

"MR"

sv) ||

1449 if

(((acc ==

"BD"

sv) || (acc ==

"DD"

sv) ||

1450

(acc ==

"DI"

sv) || (acc ==

"DJ"

sv) ||

1451

(acc ==

"DL"

sv) || (acc ==

"DM"

sv) ||

1452

(acc ==

"FU"

sv) || (acc ==

"FV"

sv) ||

1453

(acc ==

"FW"

sv) || (acc ==

"FZ"

sv) ||

1454

(acc ==

"GB"

sv) || (acc ==

"HV"

sv) ||

1455

(acc ==

"HW"

sv) || (acc ==

"HZ"

sv) ||

1456

(acc ==

"LF"

sv) || (acc ==

"LG"

sv) ||

1457

(acc ==

"LV"

sv) || (acc ==

"LX"

sv) ||

1458

(acc ==

"LY"

sv) || (acc ==

"LZ"

sv) ||

1459

(acc ==

"MA"

sv) || (acc ==

"MB"

sv) ||

1460

(acc ==

"MC"

sv) || (acc ==

"MD"

sv) ||

1461

(acc ==

"ME"

sv) || (acc ==

"OF"

sv) ||

1462

(acc ==

"OG"

sv) || (acc ==

"OI"

sv) ||

1463

(acc ==

"OJ"

sv) || (acc ==

"PA"

sv) ||

1464

(acc ==

"PB"

sv) || (acc ==

"PC"

sv) ||

1465

(acc ==

"PD"

sv) || (acc ==

"PE"

sv) ||

1466

(acc ==

"PF"

sv) || (acc ==

"PG"

sv) ||

1467

(acc ==

"PH"

sv) || (acc ==

"PI"

sv) ||

1468

(acc ==

"PJ"

sv) || (acc ==

"PK"

sv) ||

1469

(acc ==

"PL"

sv) || (acc ==

"PM"

sv) ||

1470

(acc ==

"PN"

sv) || (acc ==

"PO"

sv) ||

1478 if

(acc.length() == 1 && (acc[0] ==

'I'

|| acc[0] ==

'A'

|| acc[0] ==

'E'

)) {

1479 if

(parseInfo.

all

1494 size_t i

= acc.length();

1495 if

(

!= 2 &&

!= 4)

1499 if

(acc[0] ==

'D'

1502 if

((acc[0] ==

'E'

|| acc[0] ==

'Y'

) &&

1520 if

(acc.empty() || acc.length() != 2)

1544 if

(acc ==

"U"

sv &&

1550 if

(acc.length() != 2 && acc.length() != 4)

1554 if

((acc.length() == 2 &&

1555

((acc ==

"EZ"

sv) || (acc ==

"HP"

sv) ||

1556

(acc ==

"JI"

sv) || (acc ==

"JL"

sv) ||

1557

(acc ==

"JO"

sv) || (acc ==

"JP"

sv) ||

1558

(acc ==

"JR"

sv) || (acc ==

"JT"

sv) ||

1559

(acc ==

"JU"

sv) || (acc ==

"JV"

sv) ||

1560

(acc ==

"JW"

sv) || (acc ==

"KA"

sv))) ||

1570 if

(acc.starts_with(

"FX"

sv) || acc.starts_with(

"LA"

sv) ||

1571

acc.starts_with(

"LE"

sv) || acc.starts_with(

"LH"

sv) ||

1572

acc.starts_with(

"LI"

sv) || acc.starts_with(

"LJ"

sv) ||

1590 if

(acc.empty() || acc.length() != 4)

1601 return

(c >=

'A'

&& c <=

'Z'

);

1633

entry->

true

;

1635 if

(skip == 1 && ! tokens.list.empty()) {

1636

tokens.list.pop_front();

1639 if

(skip == 0 && ! tokens.list.empty()) {

1640 auto

tail = entry->

secaccs

.before_begin();

1643

entry->

secaccs

.splice_after(tail, tokens.list);

1651 if

(tokens.num < 2) {

1654

entry->

true

;

1671

temp += to_string(entry->

vernum

);

1690

entry->

true

;

1704

}

else if

(acc[2] ==

'_'

) {

1729

tokens.list.pop_front();

1730

tokens.list.pop_front();

1731

entry->

secaccs

= std::move(tokens.list);

1742 if

(

== 3 ||

== 8) {

1745

}

else if

(

== 5) {

1746 const char

* p = entry->

acnum

;

1757

entry->