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Searched refs:CNonExon (Results 1 – 8 of 8) sorted by relevance

/dports/biology/cufflinks/cufflinks-2.2.1-89-gdc3b0cb/src/
H A Dgff.h979 class CNonExon { //utility class used in subfeature promotion
986 CNonExon(GffObj* p, GffExon* e, GffLine* gl) { in CNonExon() function
992 ~CNonExon() { in ~CNonExon()
1022 CNonExon* subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name);
1023 void subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo);
1024 GffObj* promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex,
1039 bool addExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>& pex, bool noExonAttr);
H A Dgff.cpp1041 bool GffReader::addExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>& pex, bool noExon… in addExonFeature()
1070 CNonExon* GffReader::subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name) { in subfPoolCheck()
1071 CNonExon* subp=NULL; in subfPoolCheck()
1085 void GffReader::subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo) { in subfPoolAdd()
1089 pex.Add(xbuf, new CNonExon(newgfo, newgfo->exons[0], gffline)); in subfPoolAdd()
1094 GffObj* GffReader::promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex, in promoteFeature()
1114 GHash<CNonExon> pex; //keep track of any "exon"-like features that have an ID in readAll()
1230 CNonExon* subp=subfPoolCheck(gffline, pex, subp_name); in readAll()
/dports/biology/stringtie/stringtie-2.1.1/gclib/
H A Dgff.h1118 class CNonExon { //utility class used in subfeature promotion
1125 CNonExon(GffObj* p, GffExon* e, GffLine& gl) { in CNonExon() function
1131 ~CNonExon() { in ~CNonExon()
1191 CNonExon* subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name);
1192 void subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo);
1193 GffObj* promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex);
1208 bool readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>* pex=NULL);
H A Dgff.cpp1482 bool GffReader::readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>* pex) { in readExonFeature()
1514 CNonExon* GffReader::subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name) { in subfPoolCheck()
1515 CNonExon* subp=NULL; in subfPoolCheck()
1529 void GffReader::subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo) { in subfPoolAdd()
1533 pex.Add(xbuf, new CNonExon(newgfo, newgfo->exons[0], *gffline)); in subfPoolAdd()
1538 GffObj* GffReader::promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex) { in promoteFeature()
1660 GHash<CNonExon> pex; //keep track of any parented (i.e. exon-like) features that have an ID in readAll()
1790 CNonExon* subp=NULL; in readAll()
/dports/biology/libgff/libgff-2.0.0/include/
H A Dgff.h1118 class CNonExon { //utility class used in subfeature promotion
1125 CNonExon(GffObj* p, GffExon* e, GffLine& gl) { in CNonExon() function
1131 ~CNonExon() { in ~CNonExon()
1191 CNonExon* subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name);
1192 void subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo);
1193 GffObj* promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex);
1208 bool readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>* pex=NULL);
/dports/biology/gffread/gffread-0.12.7/gclib/
H A Dgff.h1135 class CNonExon { //utility class used in subfeature promotion
1142 CNonExon(GffObj* p, GffExon* e, GffLine& gl) { in CNonExon() function
1148 ~CNonExon() { in ~CNonExon()
1210 CNonExon* subfPoolCheck(GffLine* gffline, GHash<CNonExon*>& pex, char*& subp_name);
1211 void subfPoolAdd(GHash<CNonExon*>& pex, GffObj* newgfo);
1212 GffObj* promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon*>& pex);
1227 bool readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon*>* pex = NULL);
H A Dgff.cpp1498 bool GffReader::readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon*>* pex) { in readExonFeature()
1530 CNonExon* GffReader::subfPoolCheck(GffLine* gffline, GHash<CNonExon*>& pex, char*& subp_name) { in subfPoolCheck()
1531 CNonExon* subp=NULL; in subfPoolCheck()
1545 void GffReader::subfPoolAdd(GHash<CNonExon*>& pex, GffObj* newgfo) { in subfPoolAdd()
1549 pex.Add(xbuf, new CNonExon(newgfo, newgfo->exons[0], *gffline)); in subfPoolAdd()
1554 GffObj* GffReader::promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon*>& pex) { in promoteFeature()
1676 GHash<CNonExon*> pex; //keep track of any parented (i.e. exon-like) features that have an ID in readAll()
1806 CNonExon* subp=NULL; in readAll()
/dports/biology/libgff/libgff-2.0.0/src/
H A Dgff.cpp1482 bool GffReader::readExonFeature(GffObj* prevgfo, GffLine* gffline, GHash<CNonExon>* pex) { in readExonFeature()
1514 CNonExon* GffReader::subfPoolCheck(GffLine* gffline, GHash<CNonExon>& pex, char*& subp_name) { in subfPoolCheck()
1515 CNonExon* subp=NULL; in subfPoolCheck()
1529 void GffReader::subfPoolAdd(GHash<CNonExon>& pex, GffObj* newgfo) { in subfPoolAdd()
1533 pex.Add(xbuf, new CNonExon(newgfo, newgfo->exons[0], *gffline)); in subfPoolAdd()
1538 GffObj* GffReader::promoteFeature(CNonExon* subp, char*& subp_name, GHash<CNonExon>& pex) { in promoteFeature()
1660 GHash<CNonExon> pex; //keep track of any parented (i.e. exon-like) features that have an ID in readAll()
1790 CNonExon* subp=NULL; in readAll()