/dports/biology/emboss/EMBOSS-6.6.0/ajax/core/ |
H A D | ajvarwrite.c | 227 iter = ajListIterNewread(varheader->Header); in varoutWriteVcf40() 238 iter = ajListIterNewread(varheader->Fields); in varoutWriteVcf40() 252 iter = ajListIterNewread(varheader->Filters); in varoutWriteVcf40() 263 iter = ajListIterNewread(varheader->Alts); in varoutWriteVcf40() 338 iter = ajListIterNewread(var->Data); in varoutWriteVcf40() 519 iter = ajListIterNewread(var->Data); in varoutWriteNextVcf40() 721 iter = ajListIterNewread(var->Data); in varoutWriteBcf() 1005 iter = ajListIterNewread(var->Data); in varoutWriteNextBcf() 1305 iter = ajListIterNewread(varheader->Alts); in varoutWriteVcf41() 1380 iter = ajListIterNewread(var->Data); in varoutWriteVcf41() [all …]
|
H A D | ajresource.c | 261 iter = ajListIterNewread(thys->Taxon); in ajResourceDel() 270 iter = ajListIterNewread(thys->Edamdat); in ajResourceDel() 279 iter = ajListIterNewread(thys->Edamfmt); in ajResourceDel() 288 iter = ajListIterNewread(thys->Edamid); in ajResourceDel() 297 iter = ajListIterNewread(thys->Edamtpc); in ajResourceDel() 306 iter = ajListIterNewread(thys->Xref); in ajResourceDel() 315 iter = ajListIterNewread(thys->Query); in ajResourceDel() 806 iter = ajListIterNewread(thys->Cat); in ajResourceTrace() 1112 iter = ajListIterNewread(src); in ajReslinklistClone() 1319 iter = ajListIterNewread(src); in ajResquerylistClone() [all …]
|
H A D | ajassemwrite.c | 289 j = ajListIterNewread(c->Tags); in assemoutWriteBam() 307 j = ajListIterNewread(assem->Reads); in assemoutWriteBam() 473 j = ajListIterNewread(assem->Reads); in assemoutWriteNextBam() 661 l = ajListIterNewread(r->Tags); in assemoutWriteBamAlignment() 761 j = ajListIterNewread(c->Tags); in assemoutWriteMaf() 818 k = ajListIterNewread(r->Tags); in assemoutWriteMaf() 955 k = ajListIterNewread(r->Tags); in assemoutWriteNextMaf() 1141 j = ajListIterNewread(c->Tags); in assemoutWriteSam() 1156 j = ajListIterNewread(assem->Reads); in assemoutWriteSam() 1266 j = ajListIterNewread(assem->Reads); in assemoutWriteNextSam() [all …]
|
H A D | ajseqwrite.c | 3834 it = ajListIterNewread(outseq->Acclist); in seqWriteExperiment() 3875 it = ajListIterNewread(outseq->Keylist); in seqWriteExperiment() 3910 it = ajListIterNewread(outseq->Taxlist); in seqWriteExperiment() 4028 it = ajListIterNewread(outseq->Acclist); in seqWriteEmbl() 4079 it = ajListIterNewread(outseq->Keylist); in seqWriteEmbl() 4120 it = ajListIterNewread(outseq->Taxlist); in seqWriteEmbl() 4259 it = ajListIterNewread(outseq->Acclist); in seqWriteEmblnew() 4335 it = ajListIterNewread(outseq->Keylist); in seqWriteEmblnew() 4376 it = ajListIterNewread(outseq->Taxlist); in seqWriteEmblnew() 4415 it = ajListIterNewread(outseq->Reflist); in seqWriteEmblnew() [all …]
|
H A D | ajtextwrite.c | 173 iter = ajListIterNewread(text->Lines); in textoutWriteHtml() 205 iter = ajListIterNewread(text->Lines); in textoutWriteJson() 266 iter = ajListIterNewread(text->Lines); in textoutWriteText() 301 iter = ajListIterNewread(text->Lines); in textoutWriteXml()
|
H A D | ajfeatwrite.c | 1098 iter = ajListIterNewread(Feattab->Features); in ajFeattableWriteGff2() 1165 iter = ajListIterNewread(Feattab->Features); in ajFeattableWriteGff3() 1231 iter = ajListIterNewread(Feattab->Features); in ajFeattableWriteBed() 1640 iter = ajListIterNewread(thys->Features); in feattableWriteEmbl() 1705 iter = ajListIterNewread(thys->Features); in feattableWriteRefseq() 2092 iter = ajListIterNewread(thys->Features); in feattableWriteRefseqp() 2376 iter = ajListIterNewread(thys->Features); in ajFeattableWriteDasgff() 3320 iter = ajListIterNewread(feat->GffTags); in featDumpEmbl() 3362 iter = ajListIterNewread(feat->Tags); in featDumpEmbl() 3529 iter = ajListIterNewread(feat->Tags); in featDumpRefseq() [all …]
|
H A D | ajreport.c | 551 iterft = ajListIterNewread(ftable->Features); in reportWriteDbMotif() 707 iterft = ajListIterNewread(ftable->Features); in reportWriteDiffseq() 892 iterft = ajListIterNewread(ftable->Features); in reportWriteDraw() 1007 iterft = ajListIterNewread(ftable->Features); in reportWriteRestrict() 1041 iterft = ajListIterNewread(ftable->Features); in reportWriteRestrict() 1157 iterft = ajListIterNewread(ftable->Features); in reportWriteExcel() 1266 iterft = ajListIterNewread(ftable->Features); in reportWriteFeatTable() 1365 iterft = ajListIterNewread(ftable->Features); in reportWriteListFile() 1518 iterft = ajListIterNewread(ftable->Features); in reportWriteMotif() 2619 iterft = ajListIterNewread(ftable->Features); in reportWriteTagseq() [all …]
|
H A D | ajtaxwrite.c | 180 iter = ajListIterNewread(tax->Namelist); in taxoutWriteEbi() 268 iter = ajListIterNewread(tax->Namelist); in taxoutWriteNcbi() 320 iter = ajListIterNewread(tax->Namelist); in taxoutWriteTax()
|
H A D | ajobowrite.c | 240 iter = ajListIterNewread(obo->Taglist); in oboWriteHtml() 326 iter = ajListIterNewread(obo->Taglist); in oboWriteJson() 475 iter = ajListIterNewread(obo->Taglist); in oboWriteObo() 600 iter = ajListIterNewread(obo->Taglist); in oboWriteXml()
|
/dports/biology/emboss/EMBOSS-6.6.0/emboss/ |
H A D | servertell.c | 157 iter = ajListIterNewread(list); in main() 186 dbiter = ajListIterNewread(dblist); in main() 193 iter = ajListIterNewread(list); in main() 217 aliter = ajListIterNewread(aliaslist); in main() 228 aliter = ajListIterNewread(aliaslist); in main()
|
H A D | dbtell.c | 142 iter = ajListIterNewread(list); in main() 167 aliter = ajListIterNewread(aliaslist); in main() 178 aliter = ajListIterNewread(aliaslist); in main()
|
H A D | primersearch.c | 339 lIter = ajListIterNewread(primdata->hitlist); in primersearch_free_primer() 376 lIter = ajListIterNewread(*hlist); in primersearch_clean_hitlist() 556 listIter = ajListIterNewread(primerList); in primersearch_primer_search() 736 fi = ajListIterNewread(fhits); in primersearch_store_hits() 744 ri = ajListIterNewread(rhits); in primersearch_store_hits() 820 lIter = ajListIterNewread(primerList); in primersearch_print_hits() 824 AjIList hIter = ajListIterNewread(primer->hitlist); in primersearch_print_hits()
|
H A D | showdb.c | 256 iter = ajListIterNewread(dbnames); in main() 306 iter = ajListIterNewread(dbnames); in main() 350 iter = ajListIterNewread(dbnames); in main() 397 iter = ajListIterNewread(dbnames); in main() 441 iter = ajListIterNewread(dbnames); in main() 487 iter = ajListIterNewread(dbnames); in main() 531 iter = ajListIterNewread(dbnames); in main() 575 iter = ajListIterNewread(dbnames); in main() 619 iter = ajListIterNewread(dbnames); in main() 663 iter = ajListIterNewread(dbnames); in main() [all …]
|
H A D | vectorstrip.c | 206 AjIList iter=ajListIterNewread(vectorlist); in main() 399 iter = ajListIterNewread(*list); in vectorstrip_free_list() 554 iter = ajListIterNewread(fivelist); in vectorstrip_process_hits() 565 iter = ajListIterNewread(threelist); in vectorstrip_process_hits() 988 iter = ajListIterNewread(hitlist); in vectorstrip_print_hits()
|
H A D | splitsource.c | 76 iter = ajListIterNewread(old_feattable->Features); in main() 268 iter = ajListIterNewread(old_feattable->Features); in splitsource_AddSubSeqFeat()
|
H A D | ensembltest.c | 232 iterator = ajListIterNewread(svrnames); in main() 1503 iterator = ajListIterNewread(features); in ensembltest_feature() 2295 iter1 = ajListIterNewread(ots); in ensembltest_operon() 2320 iter2 = ajListIterNewread(genes); in ensembltest_operon() 3171 iterator = ajListIterNewread(mappath); in ensembltest_coordinate_system() 3203 iterator = ajListIterNewread(mappath); in ensembltest_coordinate_system() 3235 iterator = ajListIterNewread(mappath); in ensembltest_coordinate_system() 3329 iterator = ajListIterNewread(attributes); in ensembltest_sequence_region() 3579 iterator = ajListIterNewread(exons); in ensembltest_transcript() 4218 iter = ajListIterNewread(list); in ensembltest_miscellaneous() [all …]
|
/dports/biology/emboss/EMBOSS-6.6.0/nucleus/ |
H A D | embdata.c | 70 iter = ajListIterNewread(*data); in embDataListDel() 213 iter = ajListIterNewread(data); in embDataListRead() 274 iter = ajListIterNewread(fullList); in embDataListGetTables() 322 iter = ajListIterNewread(fullList); in embDataListGetTable()
|
H A D | embgroup.c | 1362 aiter = ajListIterNewread(alpha); in grpAddGroupsToList() 1371 iter = ajListIterNewread(groups); in grpAddGroupsToList() 1380 giter = ajListIterNewread(glist); in grpAddGroupsToList() 1395 niter = ajListIterNewread(nlist); in grpAddGroupsToList() 2210 piter = ajListIterNewread(gl->progs); in embGrpKeySearchProgs() 2450 piter = ajListIterNewread(gl->progs); in embGrpSearchProgsEdam() 2619 giter = ajListIterNewread(alpha); in embGrpKeySearchSeeAlso() 2623 piter = ajListIterNewread(gl->progs); in embGrpKeySearchSeeAlso() 2647 giter = ajListIterNewread(glist); in embGrpKeySearchSeeAlso() 2652 griter = ajListIterNewread(*appgroups); in embGrpKeySearchSeeAlso() [all …]
|
H A D | embpdb.c | 291 iter=ajListIterNewread(list_allscop); in embPdbidToScop() 527 iter=ajListIterNewread(pdb->Chains[chn-1]->Residues); in embPdbToIdx() 665 iter=ajListIterNewread(pdb->Chains[i]->Atoms); in embPdbListHeterogens() 776 iter=ajListIterNewread(pdb->Chains[chn-1]->Residues); in embPdbResidueIndexI() 904 iter=ajListIterNewread(pdb->Chains[chn-1]->Atoms); in embPdbResidueIndexICA()
|
H A D | embshow.c | 282 iter = ajListIterNewread(thys->list); in embShowDel() 970 liter = ajListIterNewread(lines); in embShowPrint() 1016 liter = ajListIterNewread(lines); in showPrintLines() 1072 diter = ajListIterNewread(thys->list); in showFillLines() 2201 miter = ajListIterNewread(info->matches); in showFillREupright() 2241 siter = ajListIterNewread(info->sitelist); in showFillREupright() 2331 liter = ajListIterNewread(linelist); in showFillREupright() 2441 miter = ajListIterNewread(info->matches); in showFillREflat() 2849 liter = ajListIterNewread(linelist); in showFillREflat() 3112 liter = ajListIterNewread(linelist); in showFillFT() [all …]
|
/dports/biology/emboss/EMBOSS-6.6.0/ajax/ensembl/ |
H A D | ensoperon.c | 1385 iter = ajListIterNewread(operon->Attributes); in ensOperonTrace() 1527 iter = ajListIterNewread(operon->Attributes); in ensOperonCalculateMemsize() 1782 iter = ajListIterNewread(list); in ensOperonFetchAllAttributes() 1855 iter = ajListIterNewread(list); in ensOperonFetchAllDatabaseentries() 4043 iter = ajListIterNewread(ot->Attributes); in ensOperontranscriptTrace() 4062 iter = ajListIterNewread(ot->Databaseentries); in ensOperontranscriptTrace() 4081 iter = ajListIterNewread(ot->Genes); in ensOperontranscriptTrace() 4186 iter = ajListIterNewread(ot->Attributes); in ensOperontranscriptCalculateMemsize() 4222 iter = ajListIterNewread(ot->Genes); in ensOperontranscriptCalculateMemsize() 4447 iter = ajListIterNewread(list); in ensOperontranscriptFetchAllAttributes() [all …]
|
H A D | ensgene.c | 2158 iter = ajListIterNewread(gene->Attributes); in ensGeneTrace() 2281 iter = ajListIterNewread(list); in ensGeneCalculateCoordinates() 2314 iter = ajListIterNewread(list); in ensGeneCalculateCoordinates() 2590 iter = ajListIterNewread(list); in ensGeneFetchAllAttributes() 2656 iter = ajListIterNewread(list); in ensGeneFetchAllDatabaseentries() 2810 titer = ajListIterNewread(tlist); in ensGeneFetchAllExons() 2818 eiter = ajListIterNewread(elist); in ensGeneFetchAllExons() 3009 iter1 = ajListIterNewread(transcripts1); in ensGeneSimilarity() 3010 iter2 = ajListIterNewread(transcripts2); in ensGeneSimilarity() 3215 iter = ajListIterNewread(transcripts); in ensGeneTransform() [all …]
|
H A D | enstranslation.c | 1962 iter = ajListIterNewread(translation->Attributes); in ensTranslationTrace() 1981 iter = ajListIterNewread(translation->Databaseentries); in ensTranslationTrace() 2000 iter = ajListIterNewread(translation->Proteinfeatures); in ensTranslationTrace() 2124 iter = ajListIterNewread(translation->Attributes); in ensTranslationCalculateMemsize() 2500 iter = ajListIterNewread(list); in ensTranslationFetchAllAttributes() 2569 iter = ajListIterNewread(list); in ensTranslationFetchAllDatabaseentries() 2703 iter = ajListIterNewread(list); in ensTranslationFetchAllProteinfeatures() 3131 iter = ajListIterNewread(exons); in translationadaptorFetchAllbyStatement() 3718 iter = ajListIterNewread(exons); in ensTranslationadaptorFetchAllbyTranscript() 3917 iter = ajListIterNewread(exons); in translationadaptorFetchAllbyIdentifiers() [all …]
|
H A D | enstranscript.c | 3606 iter = ajListIterNewread(list); in ensTranscriptCalculateCoordinates() 3636 iter = ajListIterNewread(list); in ensTranscriptCalculateCoordinates() 3727 iter = ajListIterNewread(exons); in ensTranscriptCalculateLength() 4187 iter = ajListIterNewread(exons); in ensTranscriptCalculateTranscriptCodingEnd() 4317 iter = ajListIterNewread(exons); in ensTranscriptCalculateTranscriptCodingStart() 5032 iter = ajListIterNewread(list); in ensTranscriptFetchAllAttributes() 5094 iter = ajListIterNewread(list); in ensTranscriptFetchAllConstitutiveexons() 5156 iter = ajListIterNewread(list); in ensTranscriptFetchAllDatabaseentries() 5750 iter = ajListIterNewread(exons); in ensTranscriptFetchSequenceTranscriptStr() 6341 iter = ajListIterNewread(exons); in ensTranscriptMapperInit() [all …]
|
/dports/biology/emboss/EMBOSS-6.6.0/ajax/ajaxdb/ |
H A D | ajtaxdb.c | 634 iter = ajListIterNewread(qry->QueryFields); in taxEmbossQryOpen() 754 iter= ajListIterNewread(fdlist); in taxEmbossQryEntry() 755 icache = ajListIterNewread(cachelist); in taxEmbossQryEntry() 1028 iter = ajListIterNewread(fdlist); in taxEmbossQryQuery() 1029 icache = ajListIterNewread(cachelist); in taxEmbossQryQuery()
|