/dports/biology/infernal/infernal-1.1.3/hmmer/src/ |
H A D | generic_fwdback_rescaled.c | 212 sc = MMX(i-1,k) * TSC(p7P_MI,k) in p7_GForwardOdds() 424 tp[p7P_MI] = hmm->t[k][p7H_MI]; in p7_profile_ConfigInOdds() 524 tp[p7P_MI] = hmm->t[k][p7H_MI]; in p7_profile_ConfigInOdds_DDScaled()
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H A D | generic_fwdback_banded.c | 88 *dpc++ = ISC(k) + p7_FLogsum( mvp + TSC(p7P_MI, k), ivp + TSC(p7P_II, k)); in p7_GForwardBanded()
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H A D | generic_optacc.c | 105 IMX(i,k) = ESL_MAX(TSCDELTA(p7P_MI, k) * (MMX(i-1,k) + pp->dp[i][k*p7G_NSCELLS + p7G_I]), in p7_GOptimalAccuracy() 290 path[0] = TSCDELTA(p7P_MI, k) * MMX(i-1,k); in select_i()
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H A D | generic_viterbi.c | 105 sc = ESL_MAX(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GViterbi() 249 sc = ESL_MAX(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GViterbi_longtarget()
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H A D | generic_vtrace.c | 123 … if (esl_FCompare(IMX(i,k), MMX(i-1,k) + TSC(p7P_MI, k) + ISC(k), tol) == eslOK) scur = p7T_M; in p7_GTrace()
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H A D | generic_fwdback.c | 89 sc = p7_FLogsum(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GForward() 220 IMX(i+1,k) + TSC(p7P_MI,k) + ISC(k)), in p7_GBackward()
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H A D | generic_fwdback_chk.c | 66 + p7_FLogsum( mvp + *(tsc+p7P_MI), /* M(i-1,k) * t_M(k)->I(k) */ in forward_row() 221 IMR(dpp,k) + TSC(p7P_MI,k) + ISC(k)), in backward_row()
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H A D | generic_stotrace.c | 135 sc[0] = MMX(i-1,k) + TSC(p7P_MI, k); in p7_GStochasticTrace()
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H A D | p7_profile.c | 422 case p7T_I: tsc = p7P_TSC(gm, k1, p7P_MI); break; in p7_profile_GetT()
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H A D | modelconfig.c | 129 tp[p7P_MI] = log(hmm->t[k][p7H_MI]); in p7_ProfileConfig()
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H A D | hmmer.h | 228 p7P_MI = 6, enumerator
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/dports/biology/hmmer/hmmer-3.3/src/ |
H A D | generic_fwdback_rescaled.c | 212 sc = MMX(i-1,k) * TSC(p7P_MI,k) in p7_GForwardOdds() 424 tp[p7P_MI] = hmm->t[k][p7H_MI]; in p7_profile_ConfigInOdds() 524 tp[p7P_MI] = hmm->t[k][p7H_MI]; in p7_profile_ConfigInOdds_DDScaled()
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H A D | generic_fwdback_banded.c | 88 *dpc++ = ISC(k) + p7_FLogsum( mvp + TSC(p7P_MI, k), ivp + TSC(p7P_II, k)); in p7_GForwardBanded()
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H A D | generic_optacc.c | 105 IMX(i,k) = ESL_MAX(TSCDELTA(p7P_MI, k) * (MMX(i-1,k) + pp->dp[i][k*p7G_NSCELLS + p7G_I]), in p7_GOptimalAccuracy() 290 path[0] = TSCDELTA(p7P_MI, k) * MMX(i-1,k); in select_i()
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H A D | generic_viterbi.c | 105 sc = ESL_MAX(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GViterbi() 249 sc = ESL_MAX(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GViterbi_longtarget()
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H A D | generic_vtrace.c | 123 … if (esl_FCompare(IMX(i,k), MMX(i-1,k) + TSC(p7P_MI, k) + ISC(k), tol) == eslOK) scur = p7T_M; in p7_GTrace()
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H A D | generic_fwdback.c | 89 sc = p7_FLogsum(MMX(i-1,k) + TSC(p7P_MI,k), in p7_GForward() 220 IMX(i+1,k) + TSC(p7P_MI,k) + ISC(k)), in p7_GBackward()
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H A D | generic_fwdback_chk.c | 66 + p7_FLogsum( mvp + *(tsc+p7P_MI), /* M(i-1,k) * t_M(k)->I(k) */ in forward_row() 221 IMR(dpp,k) + TSC(p7P_MI,k) + ISC(k)), in backward_row()
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H A D | generic_stotrace.c | 135 sc[0] = MMX(i-1,k) + TSC(p7P_MI, k); in p7_GStochasticTrace()
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H A D | p7_profile.c | 422 case p7T_I: tsc = p7P_TSC(gm, k1, p7P_MI); break; in p7_profile_GetT()
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H A D | modelconfig.c | 129 tp[p7P_MI] = log(hmm->t[k][p7H_MI]); in p7_ProfileConfig()
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/dports/biology/infernal/infernal-1.1.3/hmmer/src/impl_sse/ |
H A D | p7_oprofile.c | 871 case p7O_MI: tg = p7P_MI; kb = k; maxval = 0; break; in vf_conversion() 965 case p7O_MI: tg = p7P_MI; kb = k; break; in fb_conversion()
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/dports/biology/infernal/infernal-1.1.3/hmmer/src/impl_vmx/ |
H A D | p7_oprofile.c | 792 case p7O_MI: tg = p7P_MI; kb = k; maxval = 0; break; in vf_conversion() 887 case p7O_MI: tg = p7P_MI; kb = k; break; in fb_conversion()
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/dports/biology/hmmer/hmmer-3.3/src/impl_sse/ |
H A D | p7_oprofile.c | 871 case p7O_MI: tg = p7P_MI; kb = k; maxval = 0; break; in vf_conversion() 965 case p7O_MI: tg = p7P_MI; kb = k; break; in fb_conversion()
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/dports/biology/hmmer/hmmer-3.3/src/impl_vmx/ |
H A D | p7_oprofile.c | 792 case p7O_MI: tg = p7P_MI; kb = k; maxval = 0; break; in vf_conversion() 887 case p7O_MI: tg = p7P_MI; kb = k; break; in fb_conversion()
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