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

/dports/biology/star/STAR-2.7.9a/source/
H A DReadAlignChunk_mapChunk.cpp69 …} else if ( chunkOutSJ->N > P.limitOutSJcollapsed ) {//this means the number of collapsed junction… in mapChunk()
74 …} else if ( chunkOutSJ->N + P.limitOutSJoneRead > P.limitOutSJcollapsed || (readStatus==-1 && noRe… in mapChunk()
76 if ( chunkOutSJ->N + 2*P.limitOutSJoneRead > P.limitOutSJcollapsed ) { in mapChunk()
87 …} else if ( chunkOutSJ1->N > P.limitOutSJcollapsed ) {//this means the number of collapsed junctio… in mapChunk()
92 …} else if ( chunkOutSJ1->N + P.limitOutSJoneRead > P.limitOutSJcollapsed || (readStatus==-1 && noR… in mapChunk()
94 if ( chunkOutSJ1->N + 2*P.limitOutSJoneRead > P.limitOutSJcollapsed ) { in mapChunk()
H A DReadAlignChunk.cpp67 chunkOutSJ = new OutSJ (P.limitOutSJcollapsed, P, mapGen); in ReadAlignChunk()
74 chunkOutSJ1 = new OutSJ (P.limitOutSJcollapsed, P, mapGen); in ReadAlignChunk()
H A DoutputSJ.cpp25 OutSJ allSJ (P.limitOutSJcollapsed*OUTSJ_limitScale,P,RAchunk[0]->RA->genOut); in outputSJ()
70 if (allSJ.N == P.limitOutSJcollapsed*OUTSJ_limitScale ) { in outputSJ()
H A DParameters.h280 uint64 limitOutSJoneRead, limitOutSJcollapsed; variable
H A DParameters.cpp81 ….push_back(new ParameterInfoScalar <uint> (-1, -1, "limitOutSJcollapsed", &limitOutSJcollapsed)); in Parameters()
H A DparametersDefault238 limitOutSJcollapsed 1000000
/dports/biology/star/STAR-2.7.9a/
H A DCHANGES.md708 Fixed problems with overflowing SJ buffer, new input parameters: --limitOutSJcollapsed, --limitOutS…
/dports/biology/star/STAR-2.7.9a/extras/doc-latex/
H A DparametersDefault.tex239 \optName{limitOutSJcollapsed}