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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/align/splign/
H A Dsplign_util.cpp45 void CleaveOffByTail(CSplign::THitRefs* phitrefs, size_t polya_start) in CleaveOffByTail()
H A Dsplign.cpp753 void CSplign::x_SplitQualifyingHits(THitRefs* phitrefs) in x_SplitQualifyingHits()
808 void CSplign::x_SetPattern(THitRefs* phitrefs) in x_SetPattern()
1158 void CSplign::Run(THitRefs* phitrefs) in Run()
1316 bool CSplign::AlignSingleCompartment(THitRefs* phitrefs, in AlignSingleCompartment()
1425 CSplign::SAlignedCompartment CSplign::x_RunOnCompartment(THitRefs* phitrefs, in x_RunOnCompartment()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/splign/
H A Dsplign_app.cpp364 void ReadCompartment(istream& istr, CSplign::THitRefs* phitrefs) in ReadCompartment()
380 THitRefs* phitrefs, in x_GetNextComp()
852 THitRefs* phitrefs) in x_GetBl2SeqHits()
889 void CSplignApp::x_RunSplign(bool raw_hits, THitRefs* phitrefs, in x_RunSplign()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/app/hfilter/
H A Dhitfilter_app.cpp213 void CAppHitFilter::x_ReadInputHits(THitRefs* phitrefs, bool one_pair) in x_ReadInputHits()
334 THitRefs* phitrefs, in x_IterateSeqAlignList()