| /dports/biology/wise/wise2.4.1/src/dynlibsrc/ |
| H A D | alnrange.pod | 48 =item startscore
254 &Wise2::AlnRange::set_startscore(obj,startscore)
256 Replace member variable startscore
262 Argument startscore [OWNER] New value of the variable [int]
263 Return [SOFT ] member variable startscore [boolean]
266 =item startscore
268 &Wise2::AlnRange::startscore(obj)
270 Access member variable startscore
276 Return [SOFT ] member variable startscore [int]
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| H A D | alnrange.c | 41 alr->stopi,alr->stopj,alr->stopstate,alr->startscore,alr->stopscore); in show_AlnRange()
130 out->startscore = 0; in AlnRange_alloc()
762 boolean replace_startscore_AlnRange(AlnRange * obj,int startscore) in replace_startscore_AlnRange() argument
768 obj->startscore = startscore; in replace_startscore_AlnRange()
790 return obj->startscore; in access_startscore_AlnRange()
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| H A D | alnrange.xs | 151 set_startscore(obj,startscore)
153 int startscore
155 RETVAL = Wise2_replace_startscore_AlnRange(obj,startscore);
162 startscore(obj)
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| H A D | alnrange.dy | 17 int startscore
59 alr->stopi,alr->stopj,alr->stopstate,alr->startscore,alr->stopscore);
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| H A D | alnrange.h | 20 int startscore; member
266 boolean Wise2_replace_startscore_AlnRange(AlnRange * obj,int startscore);
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| H A D | alnrange_api.h | 242 boolean Wise2_replace_startscore_AlnRange( Wise2_AlnRange * obj,int startscore);
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| H A D | alnrange.tex | 29 \item{startscore} Type [int : Scalar] No documentation
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/gnomon/ |
| H A D | gnomon_objmgr.cpp | 678 …rs> hmm_params, const CSeq_loc& cds, CScope& scope, int *const gccontent, double *const startscore) in GetScore() argument
718 if(startscore) { in GetScore()
769 *startscore = start.Score(sttseq, extrabases+2); in GetScore()
770 if(*startscore != BadScore()) { in GetScore()
772 *startscore -= ncdr.Score(sttseq, i); in GetScore()
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/algo/gnomon/ |
| H A D | gnomon.hpp | 122 …bjects::CSeq_loc& cds, objects::CScope& scope, int *const gccontent, double *const startscore = 0);
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| /dports/biology/wise/wise2.4.1/src/models/ |
| H A D | editdistdp.c | 1223 out->startscore = EditDistance_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_EditDistance()
1228 …max_matrix_to_special_EditDistance(mat,out->starti,out->startj,out->startstate,out->startscore,&jp… in AlnRange_build_EditDistance()
1236 out->startscore = EditDistance_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_EditDistance()
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| H A D | transregiondp.c | 1370 out->startscore = TransRegionMatrix_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_TransRegionMatrix()
1375 …ial_TransRegionMatrix(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_TransRegionMatrix()
1383 out->startscore = TransRegionMatrix_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_TransRegionMatrix()
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| H A D | slimdba.c | 1140 out->startscore = SlimDnaMatchBlock_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_SlimDnaMatchBlock()
1145 …ial_SlimDnaMatchBlock(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_SlimDnaMatchBlock()
1153 out->startscore = SlimDnaMatchBlock_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_SlimDnaMatchBlock()
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| H A D | abc.c | 1361 out->startscore = abc_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_abc()
1366 …max_matrix_to_special_abc(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj… in AlnRange_build_abc()
1374 out->startscore = abc_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_abc()
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| H A D | proteinsw.c | 1360 out->startscore = ProteinSW_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_ProteinSW()
1365 …max_matrix_to_special_ProteinSW(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,… in AlnRange_build_ProteinSW()
1373 out->startscore = ProteinSW_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_ProteinSW()
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| H A D | statwise10.c | 1004 out->startscore = StatWise10_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_StatWise10()
1009 …max_matrix_to_special_StatWise10(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos… in AlnRange_build_StatWise10()
1017 out->startscore = StatWise10_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_StatWise10()
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| H A D | dnaalign.c | 1482 out->startscore = DnaAlign_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_DnaAlign()
1487 …max_matrix_to_special_DnaAlign(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,s… in AlnRange_build_DnaAlign()
1495 out->startscore = DnaAlign_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_DnaAlign()
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| H A D | threestatedp.c | 1261 out->startscore = ThreeStateProtein_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_ThreeStateProtein()
1266 …ial_ThreeStateProtein(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_ThreeStateProtein()
1274 out->startscore = ThreeStateProtein_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_ThreeStateProtein()
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| H A D | largeblockdp.c | 1255 out->startscore = LargeBlockAligner_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_LargeBlockAligner()
1260 …ial_LargeBlockAligner(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_LargeBlockAligner()
1268 out->startscore = LargeBlockAligner_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_LargeBlockAligner()
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| H A D | localclonewisedp.c | 1372 out->startscore = LocalCloneWise_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_LocalCloneWise()
1377 …pecial_LocalCloneWise(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_LocalCloneWise()
1385 out->startscore = LocalCloneWise_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_LocalCloneWise()
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| H A D | dnaprofiledp.c | 1554 out->startscore = DnaProfileMat_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_DnaProfileMat()
1559 …max_matrix_to_special_DnaProfileMat(mat,out->starti,out->startj,out->startstate,out->startscore,&j… in AlnRange_build_DnaProfileMat()
1567 out->startscore = DnaProfileMat_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_DnaProfileMat()
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| H A D | threestateloop.c | 1382 out->startscore = ThreeStateLoop_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_ThreeStateLoop()
1387 …pecial_ThreeStateLoop(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_ThreeStateLoop()
1395 out->startscore = ThreeStateLoop_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_ThreeStateLoop()
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| H A D | clonewisedp.c | 1487 out->startscore = CloneWise_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_CloneWise()
1492 …max_matrix_to_special_CloneWise(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,… in AlnRange_build_CloneWise()
1500 out->startscore = CloneWise_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_CloneWise()
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| H A D | estquick3.c | 1404 out->startscore = EstQuick3_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_EstQuick3()
1409 …max_matrix_to_special_EstQuick3(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,… in AlnRange_build_EstQuick3()
1417 out->startscore = EstQuick3_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_EstQuick3()
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| H A D | motifmatrixdp.c | 1167 out->startscore = LocalMotifMatrix_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_LocalMotifMatrix()
1172 …cial_LocalMotifMatrix(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_LocalMotifMatrix()
1180 out->startscore = LocalMotifMatrix_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_LocalMotifMatrix()
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| H A D | pba.c | 1508 out->startscore = ProteinBlockAligner_DC_SHADOW_SPECIAL_SP(mat,0,jpos,state,6); in AlnRange_build_ProteinBlockAligner()
1513 …l_ProteinBlockAligner(mat,out->starti,out->startj,out->startstate,out->startscore,&jpos,startj,sta… in AlnRange_build_ProteinBlockAligner()
1521 out->startscore = ProteinBlockAligner_DC_SHADOW_SPECIAL(mat,0,*startj,*startspecstate); in AlnRange_build_ProteinBlockAligner()
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