Searched refs:uMATL_ST (Results 1 – 16 of 16) sorted by relevance
| /dports/biology/tRNAscan-SE/tRNAscan-SE-2.0/src/ |
| H A D | model.c | 213 tflags = uDEL_ST | uMATP_ST | uMATR_ST | uMATL_ST; in RearrangeCM()
217 tflags = uDEL_ST | uMATL_ST; in RearrangeCM()
247 fflags = uDEL_ST | uMATL_ST | uINSL_ST; in RearrangeCM()
326 if (fflags & uMATL_ST) in RearrangeCM()
328 fill_state(&icm[y], k, uMATL_ST, offset); in RearrangeCM()
473 if (tflags & uMATL_ST) in copy_state_transitions()
555 fflags = uDEL_ST | uMATL_ST | uINSL_ST; in MakePCM()
627 if (fflags & uMATL_ST) in MakePCM()
629 fill_pstate(&pcm[y], k, uMATL_ST, offset); in MakePCM()
715 if (tflags & uMATL_ST) in copy_pstate_transitions()
[all …]
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| H A D | probify.c | 84 ProbifySingletEmission(cm->nd[k].ml_emit, uMATL_ST, prior); in ProbifyCM()
91 ProbifySingletEmission(cm->nd[k].ml_emit, uMATL_ST, prior); in ProbifyCM()
179 case uMATL_ST: em_prior = prior->matl_prior; break; in ProbifySingletEmission()
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| H A D | emit.c | 138 case uMATL_ST: in EmitSequence()
275 case uMATL_ST: in EmitBestSequence()
431 case uMATL_ST: emit = cm->nd[nodeidx].ml_emit; break; in pick_single_emit()
547 case uMATL_ST: emit = cm->nd[nodeidx].ml_emit; break; in pick_best_single()
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| H A D | debug.c | 26 case uMATL_ST: return "uMATL_ST"; in UstatetypeName()
199 case uMATL_ST: in PrintICM()
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| H A D | konings.c | 84 case uMATL_ST: in Align2kh()
142 case uMATL_ST: fputs("\\ MATL", fp); break; in PrintAliLandscape()
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| H A D | align.c | 193 case uMATL_ST: in Trace2ali()
305 case uMATL_ST: in Traces2Alignment()
363 case uMATL_ST: in Traces2Alignment()
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| H A D | structs.c | 50 case uMATL_ST: return MATL_ST; in StatetypeIndex()
80 case MATL_ST: return uMATL_ST; in UniqueStatetype()
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| H A D | viterbi.c | 395 case uMATL_ST: in recurse_mx()
579 case uMATL_ST: in trace_mx()
594 case uMATL_ST: in trace_mx()
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| H A D | structs.h | 63 #define uMATL_ST (1<<2) macro
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| H A D | trace.c | 379 else if (curr->type == uMATL_ST) in TraceCount()
491 case uMATL_ST: prior->matl_prior[syml] += weight; break; in TraceCountPrior()
573 else if (curr->type == uMATL_ST) in TraceScore()
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| H A D | lengthdist.c | 105 case uMATL_ST: in LengthDistribution()
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| H A D | modelmaking.c | 174 if (isgap(aseq[curr_mtr->emitr])) curr_tr->type = uMATL_ST; in Transmogrify()
193 else curr_tr->type = uMATL_ST; in Transmogrify()
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| H A D | dbviterbi.c | 388 case uMATL_ST: in recurse_mx()
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| H A D | fast-dbviterbi.c | 401 case uMATL_ST: in recurse_mx()
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| H A D | smallviterbi.c | 529 case uMATL_ST: in recurse_mx()
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| H A D | maxmodelmaker.c | 1062 ProbifySingletEmission(emvec, uMATL_ST, prior); in singlet_emissions()
1134 ProbifySingletEmission(matl_emit, uMATL_ST, prior); in pair_emissioncost()
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