Searched refs:eUnknownOrientation (Results 1 – 6 of 6) sorted by relevance
63 a.Status()|= CGeneModel::eUnknownOrientation; in GetAlignment()144 if(align.Status()&CGeneModel::eUnknownOrientation) { in CAlignCommon()855 if(!(align.Status()&CGeneModel::eUnknownOrientation)) { in CleanSelfTranscript()890 if(!(align.Status()&CGeneModel::eUnknownOrientation)) { in CleanSelfTranscript()1373 if(align.Status()&CGeneModel::eUnknownOrientation) { in FilterAlignments()1592 … if((align.Status()&CGeneModel::eUnknownOrientation) || align.Strand() == ePlus) { in FilterAlignments()1998 if((align.Type()&CGeneModel::eSR) && !(align.Status()&CGeneModel::eUnknownOrientation) && in GetCollapsedAlgnments()2023 align.Status() -= CGeneModel::eUnknownOrientation; in GetCollapsedAlgnments()2081 …t.Strand() || (host.Status()&CGeneModel::eUnknownOrientation) != (guest.Status()&CGeneModel::eUnkn… in GetCollapsedAlgnments()2294 if(a.Status()&CGeneModel::eUnknownOrientation) in AddAlignment()[all …]
975 … a.Strand() || ((a.Status()&CGeneModel::eUnknownOrientation) != 0 && (b.Status()&CGeneModel::eUnkn… in isCompatible()1738 …if ((a.Status()&CGeneModel::eUnknownOrientation)!=0) attributes["flags"] += ",UnknownOrientatio… in CollectAttributes()1858 else if (*f == "UnknownOrientation") a.Status()|= CGeneModel::eUnknownOrientation; in ParseAttributes()2323 _ASSERT((a.Status()&CGeneModel::eUnknownOrientation) == 0); in readGFF3()
462 Status() |= CGeneModel::eUnknownOrientation; in CAlignModel()
2040 if((algn.Status()&CGeneModel::eUnknownOrientation) != 0) { in DuplicateNotOriented()2425 if(ai.Status()&CGeneModel::eUnknownOrientation) { in FindContainedAlignments()3057 if((align.Status()&CGeneModel::eUnknownOrientation) == 0) { in MakeChains()3085 if(align.Status()&CGeneModel::eUnknownOrientation) { in MakeChains()3098 align.Status() ^= CGeneModel::eUnknownOrientation; in MakeChains()3102 align.Status() ^= CGeneModel::eUnknownOrientation; in MakeChains()6608 …| (align.Status()&CGeneModel::eReversed)!=0 || (align.Status()&CGeneModel::eUnknownOrientation)!=0) in transform_align()6863 if ((align.Status()&CGeneModel::eUnknownOrientation) != 0 || align.PolyALen() < minpolya) in transform_align()
962 if(Status()&eUnknownOrientation) in MakeSeqAlign()
384 eUnknownOrientation = 1024, enumerator