/dports/biology/emboss/EMBOSS-6.6.0/ajax/core/ |
H A D | ajfile.h | 259 #define AjPFilebuff AjOFilebuff* macro 411 void ajFilebuffDel(AjPFilebuff* pthis); 412 AjPFilebuff ajFilebuffNewNofile(void); 421 AjPFilebuff ajFilebuffNewFromCfile(FILE *fp); 422 AjPFilebuff ajFilebuffNewFromFile(AjPFile file); 423 AjPFilebuff ajFilebuffNewLine(const AjPStr line); 434 void ajFilebuffFix(AjPFilebuff thys); 438 void ajFilebuffLoadAll(AjPFilebuff buff); 444 void ajFilebuffReset(AjPFilebuff thys); 451 AjBool ajFilebuffHtmlPre(AjPFilebuff thys); [all …]
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H A D | ajfileio.h | 122 AjBool ajBuffreadLine(AjPFilebuff buff, AjPStr *pdest); 123 AjBool ajBuffreadLinePos(AjPFilebuff buff, AjPStr *pdest, 125 AjBool ajBuffreadLineStore(AjPFilebuff buff, AjPStr* pdest, 127 AjBool ajBuffreadLinePosStore(AjPFilebuff buff, AjPStr* pdest, 129 AjBool ajBuffreadLineTrim(AjPFilebuff buff, AjPStr* pdest); 143 __deprecated void ajFileBuffLoad(AjPFilebuff thys); 144 __deprecated AjBool ajFileBuffGet(AjPFilebuff thys, AjPStr *pdest); 145 __deprecated AjBool ajFileBuffGetL(AjPFilebuff thys, AjPStr *pdest, 147 __deprecated AjBool ajFileBuffGetStore(AjPFilebuff thys, AjPStr* pdest, 149 __deprecated AjBool ajFileBuffGetStoreL(AjPFilebuff thys, [all …]
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H A D | ajfeatread.h | 88 const char* type, AjPFilebuff buff); 92 const char* type, AjPFilebuff buff); 95 AjPFilebuff buff); 142 const char* type, AjPFilebuff buff); 146 const char* type, AjPFilebuff buff);
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H A D | ajfile.c | 2981 AjPFilebuff thys; in ajFilebuffNewFromFile() 3013 AjPFilebuff thys; in ajFilebuffNewLine() 3155 AjPFilebuff ajFilebuffNewNofile(void) in ajFilebuffNewNofile() 3505 void ajFilebuffDel(AjPFilebuff* Pbuff) in ajFilebuffDel() 3507 AjPFilebuff thys; in ajFilebuffDel() 3571 AjPFilebuff thys; in ajFilebuffReopenFile() 3831 void ajFilebuffFix(AjPFilebuff buff) in ajFilebuffFix() 3876 void ajFilebuffReset(AjPFilebuff buff) in ajFilebuffReset() 3904 void ajFilebuffResetPos(AjPFilebuff buff) in ajFilebuffResetPos() 4360 AjBool ajFilebuffHtmlPre(AjPFilebuff buff) in ajFilebuffHtmlPre() [all …]
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H A D | ajhttp.h | 118 AjPFilebuff ajHttpRead(const AjPStr dbhttpver, const AjPStr dbname, 121 AjPFilebuff ajHttpReadPos(const AjPStr dbhttpver, const AjPStr dbname, 124 AjBool ajHttpRedirect(AjPFilebuff buff, AjPStr* host, ajint* port,
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H A D | ajfileio.c | 39 static void filebuffLineAdd(AjPFilebuff thys, const AjPStr line); 1888 AjBool ajBuffreadLine(AjPFilebuff buff, AjPStr* Pdest) in ajBuffreadLine() 1914 AjBool ajBuffreadLinePos(AjPFilebuff buff, AjPStr* Pdest, ajlong* Ppos) in ajBuffreadLinePos() 2061 AjBool ajBuffreadLineStore(AjPFilebuff buff, AjPStr* Pdest, in ajBuffreadLineStore() 2097 AjBool ajBuffreadLineTrim(AjPFilebuff buff, AjPStr* Pdest) in ajBuffreadLineTrim() 2131 static void filebuffLineAdd(AjPFilebuff buff, const AjPStr line) in filebuffLineAdd() 2337 __deprecated AjBool ajFileBuffGet(AjPFilebuff thys, AjPStr* pdest) in ajFileBuffGet() 2348 __deprecated AjBool ajFileBuffGetL(AjPFilebuff buff, AjPStr* pdest, in ajFileBuffGetL() 2360 __deprecated AjBool ajFileBuffGetStoreL(AjPFilebuff thys, AjPStr* pdest, in ajFileBuffGetStoreL() 2373 __deprecated AjBool ajFileBuffGetStore(AjPFilebuff thys, AjPStr* pdest, in ajFileBuffGetStore() [all …]
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H A D | ajftp.h | 77 AjPFilebuff ajFtpRead(const AjPStr dbname,
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H A D | ajcod.c | 65 static AjBool codReadCodehop(AjPCod thys, AjPFilebuff inbuff); 66 static AjBool codReadCutg(AjPCod thys, AjPFilebuff inbuff); 67 static AjBool codReadEmboss(AjPCod thys, AjPFilebuff inbuff); 68 static AjBool codReadGcg(AjPCod thys, AjPFilebuff inbuff); 69 static AjBool codReadSpsum(AjPCod thys, AjPFilebuff inbuff); 70 static AjBool codReadStaden(AjPCod thys, AjPFilebuff inbuff); 149 AjBool (*Read) (AjPCod thys, AjPFilebuff inbuff); 920 AjPFilebuff inbuff = NULL; in ajCodRead() 1232 static AjBool codReadSpsum(AjPCod thys, AjPFilebuff inbuff) in codReadSpsum() 1305 static AjBool codReadCutg(AjPCod thys, AjPFilebuff inbuff) in codReadCutg() [all …]
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H A D | ajhttp.c | 1026 AjBool ajHttpRedirect(AjPFilebuff buff, AjPStr* host, ajint* port, AjPStr* path, in ajHttpRedirect() 1122 AjPFilebuff ajHttpRead(const AjPStr dbhttpver, const AjPStr dbname, in ajHttpRead() 1151 AjPFilebuff ajHttpReadPos(const AjPStr dbhttpver, const AjPStr dbname, in ajHttpReadPos() 1162 AjPFilebuff buff = NULL; in ajHttpReadPos()
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H A D | ajtextdata.h | 198 AjPFilebuff Filebuff;
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H A D | ajassemread.c | 475 AjPFilebuff buff = input->Filebuff; in ajAsseminLoad() 746 AjPFilebuff buff = input->Filebuff; in asseminLoadFmt() 825 AjPFilebuff buff = input->Filebuff; in asseminLoad() 1120 AjPFilebuff buff = NULL; in asseminReadBamHeader() 1267 AjPFilebuff buff = input->Filebuff; in asseminLoadBam() 1690 AjPFilebuff buff = input->Filebuff; in asseminLoadMaf() 1992 AjPFilebuff buff = input->Filebuff; in asseminReadSamHeader() 2131 AjPFilebuff buff = input->Filebuff; in asseminLoadSam() 2219 AjPFilebuff buff = NULL; in asseminReadSamAlignments()
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H A D | ajtextread.c | 1428 AjPFilebuff buff = textin->Filebuff; in textinRead() 1712 AjPFilebuff buff; in textinReadText() 1759 AjPFilebuff buff; in textinReadXml() 1805 AjPFilebuff buff; in textinReadEmbl() 1876 AjPFilebuff buff; in textinReadGenbank() 1947 AjPFilebuff buff; in textinReadObo() 2017 AjPFilebuff buff; in textinReadPdb()
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H A D | ajdom.h | 526 ajint ajDomReadFilebuff(AjPDomDocument node, AjPFilebuff buff); 527 ajint ajDomReadFilebuffText(AjPDomDocument node, AjPFilebuff buff,
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H A D | ajftp.c | 473 AjPFilebuff ajFtpRead(const AjPStr dbname, in ajFtpRead() 480 AjPFilebuff buff = NULL; in ajFtpRead()
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H A D | ajnexus.h | 469 AjPNexus ajNexusParse(AjPFilebuff buff);
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H A D | ajfeatread.c | 585 const char* type, AjPFilebuff buff) in ajFeattabinNewCSF() 1319 AjPFilebuff buff = feattabin->Input->Filebuff; in feattabinRead() 1630 AjPFilebuff file; in ajFeattableNewRead() 1962 AjPFilebuff inf = feattabin->Input->Filebuff; in featReadDasgff() 2469 AjPFilebuff file = feattabin->Input->Filebuff; in featReadEmbl() 2558 AjPFilebuff file = feattabin->Input->Filebuff; in featReadGenpept() 2609 AjPFilebuff file = feattabin->Input->Filebuff; in featReadRefseq() 2659 AjPFilebuff file = feattabin->Input->Filebuff; in featReadRefseqp() 2707 AjPFilebuff file = feattabin->Input->Filebuff; in featReadPir() 2899 AjPFilebuff file = feattabin->Input->Filebuff; in featReadSwiss() [all …]
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H A D | ajseqread.c | 3126 AjPFilebuff buff; in seqReadFasta() 3256 AjPFilebuff buff; in seqReadFastq() 3410 AjPFilebuff buff; in seqReadFastqSanger() 3857 AjPFilebuff buff; in seqReadFastqIllumina() 4065 AjPFilebuff buff; in seqReadFastqSolexa() 4282 AjPFilebuff buff; in seqReadDbId() 4402 AjPFilebuff buff; in seqReadGde() 4493 AjPFilebuff buff; in seqReadNbrf() 4708 AjPFilebuff buff; in seqReadNibble() 4846 AjPFilebuff buff; in seqReadGcg() [all …]
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H A D | ajvarread.c | 635 AjPFilebuff buff = input->Filebuff; in ajVarinLoad() 901 AjPFilebuff buff = input->Filebuff; in varinLoadFmt() 982 AjPFilebuff buff = input->Filebuff; in varinLoad() 1277 AjPFilebuff buff= input->Filebuff; in varinLoadBcf() 1432 AjPFilebuff buff; in varinLoadVcf3x() 1668 AjPFilebuff buff = input->Filebuff; in varinLoadVcf40() 1903 AjPFilebuff buff; in varinReadVcf41Header() 2016 AjPFilebuff buff = input->Filebuff; in varinLoadVcf41()
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H A D | ajpat.c | 749 AjPFilebuff infile = NULL; in ajPatlistSeqRead() 894 AjPFilebuff infile = NULL; in ajPatlistRegexRead()
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/dports/biology/emboss/EMBOSS-6.6.0/ajax/ajaxdb/ |
H A D | ajdas.h | 226 AjBool ajDasParseRegistry(AjPFilebuff buff, AjPList sources); 227 AjBool ajDasParseEntrypoints(AjPFilebuff buff, AjPList segments);
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H A D | ajdas.c | 46 static AjBool dasQueryParse(AjPFilebuff buff, void* results, 397 AjBool ajDasParseRegistry(AjPFilebuff buff, AjPList sources) in ajDasParseRegistry() 419 AjBool ajDasParseEntrypoints(AjPFilebuff buff, AjPList segments) in ajDasParseEntrypoints() 695 static AjBool dasQueryParse(AjPFilebuff buff, void* results, in dasQueryParse()
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H A D | ajmart.c | 81 static AjBool martBuffIsXML(AjPFilebuff buff); 100 static AjBool martWriteCacheEntry(AjPMartquery mq, AjPFilebuff buff, 102 static AjBool martReadCacheEntry(AjPMartquery mq, AjPFilebuff *buff, 937 AjPFilebuff buff = NULL; in ajMartregistryParse() 1345 static AjBool martBuffIsXML(AjPFilebuff buff) in martBuffIsXML() 1460 AjPFilebuff buff = NULL; in martParseTabbedDataset() 1961 AjPFilebuff buff = NULL; in martParseTabbedAttributes() 2414 AjPFilebuff buff = NULL; in martParseTabbedFilters() 4538 AjPFilebuff buff = NULL; in ajMartCheckHeader() 4763 static AjBool martWriteCacheEntry(AjPMartquery mq, AjPFilebuff buff, ajint type) in martWriteCacheEntry() [all …]
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/dports/biology/emboss/EMBOSS-6.6.0/emboss/ |
H A D | dastest.c | 38 static void dastestSaveRawFeatures(AjPFilebuff buff, 80 AjPFilebuff buff = NULL; in main() 471 static void dastestSaveRawFeatures(AjPFilebuff buff, const AjPStr ffname) in dastestSaveRawFeatures()
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H A D | cachedas.c | 55 AjPFilebuff buff = NULL; in main()
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H A D | embossupdate.c | 51 AjPFilebuff updatefile = NULL; in main()
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