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Searched refs:uINSL_ST (Results 1 – 15 of 15) sorted by relevance

/dports/biology/tRNAscan-SE/tRNAscan-SE-2.0/src/
H A Dmodel.c242 tflags |= uINSL_ST | uINSR_ST; in RearrangeCM()
248 tflags |= uINSL_ST; in RearrangeCM()
266 tflags |= uINSL_ST; in RearrangeCM()
272 tflags |= uINSL_ST | uINSR_ST; in RearrangeCM()
344 if (fflags & uINSL_ST) in RearrangeCM()
460 if (tflags & uINSL_ST) in copy_state_transitions()
556 tflags |= uINSL_ST; in MakePCM()
574 tflags |= uINSL_ST; in MakePCM()
645 if (fflags & uINSL_ST) in MakePCM()
702 if (tflags & uINSL_ST) in copy_pstate_transitions()
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H A Dprobify.c82 ProbifySingletEmission(cm->nd[k].il_emit, uINSL_ST, prior); in ProbifyCM()
90 ProbifySingletEmission(cm->nd[k].il_emit, uINSL_ST, prior); in ProbifyCM()
100 ProbifySingletEmission(cm->nd[k].il_emit, uINSL_ST, prior); in ProbifyCM()
104 ProbifySingletEmission(cm->nd[k].il_emit, uINSL_ST, prior); in ProbifyCM()
181 case uINSL_ST: em_prior = prior->insl_prior; break; in ProbifySingletEmission()
H A Demit.c137 case uINSL_ST: in EmitSequence()
274 case uINSL_ST: in EmitBestSequence()
429 case uINSL_ST: emit = cm->nd[nodeidx].il_emit; break; in pick_single_emit()
545 case uINSL_ST: emit = cm->nd[nodeidx].il_emit; break; in pick_best_single()
H A Ddebug.c28 case uINSL_ST: return "uINSL_ST"; in UstatetypeName()
201 case uINSL_ST: in PrintICM()
H A Dmodelmaking.c182 curr_tr = AttachTrace(curr_tr, pool, i2, curr_mtr->emitr, curr_mtr->nodeidx, uINSL_ST); in Transmogrify()
199 curr_tr = AttachTrace(curr_tr, pool, i2, curr_mtr->emitr, curr_mtr->nodeidx, uINSL_ST); in Transmogrify()
223 curr_tr = AttachTrace(curr_tr, pool, i2, curr_mtr->emitr, curr_mtr->nodeidx, uINSL_ST); in Transmogrify()
235 curr_tr = AttachTrace(curr_tr, pool, i2, curr_mtr->emitr, curr_mtr->nodeidx, uINSL_ST); in Transmogrify()
H A Dkonings.c78 case uINSL_ST: in Align2kh()
140 case uINSL_ST: fputs("` INSL", fp); break; in PrintAliLandscape()
H A Dalign.c192 case uINSL_ST: in Trace2ali()
315 case uINSL_ST: in Traces2Alignment()
382 case uINSL_ST: in Traces2Alignment()
H A Dstructs.c53 case uINSL_ST: return INSL_ST; in StatetypeIndex()
83 case INSL_ST: return uINSL_ST; in UniqueStatetype()
H A Dviterbi.c396 case uINSL_ST: in recurse_mx()
580 case uINSL_ST: beam = amx[j][diff-1]; conni = i+1; connj = j; break; in trace_mx()
595 case uINSL_ST: sc -= icm[y].emit[symi]; break; in trace_mx()
H A Dstructs.h65 #define uINSL_ST (1<<4) macro
H A Dtrace.c328 else if (curr->type == uINSL_ST) in TraceCount()
493 case uINSL_ST: prior->insl_prior[syml] += weight; break; in TraceCountPrior()
545 else if (curr->type == uINSL_ST) in TraceScore()
H A Dlengthdist.c106 case uINSL_ST: in LengthDistribution()
H A Ddbviterbi.c389 case uINSL_ST: in recurse_mx()
H A Dfast-dbviterbi.c402 case uINSL_ST: in recurse_mx()
H A Dsmallviterbi.c530 case uINSL_ST: in recurse_mx()