| /dports/biology/iqtree/IQ-TREE-2.0.6/tree/ |
| H A D | phylokernelmixrate.h | 554 VectorClass lh_ptn, df_ptn, ddf_ptn, inv_lh_ptn; in computeMixrateLikelihoodDervEigenSIMD() local
590 ddf_ptn = horizontal_add(vc_ddf) * inv_lh_ptn; in computeMixrateLikelihoodDervEigenSIMD()
591 ddf_ptn = nmul_add(df_ptn, df_ptn, ddf_ptn); in computeMixrateLikelihoodDervEigenSIMD()
598 ddf_final = mul_add(ddf_ptn, vc_freq, ddf_final); in computeMixrateLikelihoodDervEigenSIMD()
628 ddf_ptn = 0.0; in computeMixrateLikelihoodDervEigenSIMD()
634 ddf_final += ddf_ptn; in computeMixrateLikelihoodDervEigenSIMD()
657 ddf_ptn = horizontal_add(vc_ddf); in computeMixrateLikelihoodDervEigenSIMD()
664 ddf_const = horizontal_add(ddf_final+ddf_ptn); in computeMixrateLikelihoodDervEigenSIMD()
669 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]; in computeMixrateLikelihoodDervEigenSIMD()
674 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]+ddf_ptn[1]; in computeMixrateLikelihoodDervEigenSIMD()
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| H A D | phylokernelmixture.h | 585 VectorClass lh_ptn, df_ptn, ddf_ptn, inv_lh_ptn; in computeMixtureLikelihoodDervEigenSIMD() local
621 ddf_ptn = horizontal_add(vc_ddf) * inv_lh_ptn; in computeMixtureLikelihoodDervEigenSIMD()
622 ddf_ptn = nmul_add(df_ptn, df_ptn, ddf_ptn); in computeMixtureLikelihoodDervEigenSIMD()
629 ddf_final = mul_add(ddf_ptn, vc_freq, ddf_final); in computeMixtureLikelihoodDervEigenSIMD()
658 ddf_ptn = 0.0; in computeMixtureLikelihoodDervEigenSIMD()
664 ddf_final += ddf_ptn; in computeMixtureLikelihoodDervEigenSIMD()
687 ddf_ptn = horizontal_add(vc_ddf); in computeMixtureLikelihoodDervEigenSIMD()
694 ddf_const = horizontal_add(ddf_final+ddf_ptn); in computeMixtureLikelihoodDervEigenSIMD()
699 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]; in computeMixtureLikelihoodDervEigenSIMD()
704 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]+ddf_ptn[1]; in computeMixtureLikelihoodDervEigenSIMD()
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| H A D | phylokernelnonrev.cpp | 478 double lh_ptn = ptn_invar[ptn], df_ptn = 0.0, ddf_ptn = 0.0; in computeNonrevLikelihoodDerv() local
489 ddf_ptn += lh_derv2[i] * partial_lh_dad[i]; in computeNonrevLikelihoodDerv()
499 double ddf_frac = ddf_ptn / lh_ptn; in computeNonrevLikelihoodDerv()
512 ddf_const += ddf_ptn; in computeNonrevLikelihoodDerv()
532 double lh_ptn = ptn_invar[ptn], df_ptn = 0.0, ddf_ptn = 0.0; in computeNonrevLikelihoodDerv() local
550 ddf_ptn += partial_lh_dad[i] * lh_derv2; in computeNonrevLikelihoodDerv()
562 double ddf_frac = ddf_ptn / lh_ptn; in computeNonrevLikelihoodDerv()
575 ddf_const += ddf_ptn; in computeNonrevLikelihoodDerv()
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| H A D | phylokernelsafe.h | 717 VectorClass lh_ptn, df_ptn, ddf_ptn, inv_lh_ptn; in computeLikelihoodDervEigenSIMD() local
753 ddf_ptn = horizontal_add(vc_ddf) * inv_lh_ptn; in computeLikelihoodDervEigenSIMD()
754 ddf_ptn = nmul_add(df_ptn, df_ptn, ddf_ptn); in computeLikelihoodDervEigenSIMD()
761 ddf_final = mul_add(ddf_ptn, vc_freq, ddf_final); in computeLikelihoodDervEigenSIMD()
787 ddf_ptn = 0.0; in computeLikelihoodDervEigenSIMD()
793 ddf_final += ddf_ptn; in computeLikelihoodDervEigenSIMD()
816 ddf_ptn = horizontal_add(vc_ddf); in computeLikelihoodDervEigenSIMD()
823 ddf_const = horizontal_add(ddf_final+ddf_ptn); in computeLikelihoodDervEigenSIMD()
828 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]; in computeLikelihoodDervEigenSIMD()
833 ddf_const = horizontal_add(ddf_final)+ddf_ptn[0]+ddf_ptn[1]; in computeLikelihoodDervEigenSIMD()
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| H A D | phylokernelnonrev.h | 712 VectorClass lh_ptn, df_ptn, ddf_ptn; local
798 VectorClass ddf_frac = ddf_ptn * lh_ptn;
810 ddf_ptn.cutoff(nptn-ptn);
815 double *ddf_ptn_dbl = (double*)&ddf_ptn;
824 vc_ddf_const += ddf_ptn;
862 VectorClass lh_ptn(0.0), df_ptn(0.0), ddf_ptn(0.0);
943 ddf_ptn = mul_add(partial_lh_dad[i], lh_derv2, ddf_ptn);
956 VectorClass ddf_frac = ddf_ptn * lh_ptn;
968 ddf_ptn.cutoff(nptn-ptn);
974 double *ddf_ptn_dbl = (double*)&ddf_ptn;
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| H A D | phylokernelnew.h | 2327 VectorClass *ddf_ptn = df_ptn+nmixlen; in computeLikelihoodDervSIMD() local
2337 df_ptn[i] = ddf_ptn[i] = 0.0; in computeLikelihoodDervSIMD()
2367 ddf_ptn[i] *= inv_lh_ptn; in computeLikelihoodDervSIMD()
2409 VectorClass df_ptn, ddf_ptn; in computeLikelihoodDervSIMD() local
2426 ddf_ptn = mul_add(cat_prop[c], ddf_cat, ddf_ptn); in computeLikelihoodDervSIMD()
2455 ddf_ptn.cutoff(nptn-ptn); in computeLikelihoodDervSIMD()
2477 vc_ddf_const += ddf_ptn; in computeLikelihoodDervSIMD()
3466 VectorClass df_ptn, ddf_ptn; in computeLikelihoodDervMixlenSIMD() local
3469 lh_ptn = df_ptn = ddf_ptn = 0.0; in computeLikelihoodDervMixlenSIMD()
3495 ddf_ptn *= inv_lh_ptn; in computeLikelihoodDervMixlenSIMD()
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| H A D | phylokernelsitemodel.h | 469 VectorClass ddf_ptn[VCSIZE]; in computeSitemodelLikelihoodDervEigenSIMD() local
476 ddf_ptn[j] = 0.0; in computeSitemodelLikelihoodDervEigenSIMD()
496 ddf_ptn[j] = mul_add(prop, ddf_cat, ddf_ptn[j]); in computeSitemodelLikelihoodDervEigenSIMD()
507 VectorClass ddf_ptn_sum = horizontal_add(ddf_ptn) * inv_lh_ptn; in computeSitemodelLikelihoodDervEigenSIMD()
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| H A D | phylotreemixlen.cpp | 850 double lh_ptn = ptn_invar[ptn], df_ptn = 0.0, ddf_ptn = 0.0; in computeFuncDerv() local
855 ddf_ptn += val2[i] * theta[i]; in computeFuncDerv()
863 double ddf_frac = ddf_ptn / lh_ptn; in computeFuncDerv()
873 ddf_const += ddf_ptn; in computeFuncDerv()
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| H A D | phylokernelsitemodel.cpp | 521 double lh_ptn = ptn_invar[ptn], df_ptn = 0.0, ddf_ptn = 0.0; in computeSitemodelLikelihoodDervEigen() local
539 ddf_ptn += prop * ddf_cat; in computeSitemodelLikelihoodDervEigen()
546 double ddf_frac = ddf_ptn * lh_ptn; in computeSitemodelLikelihoodDervEigen()
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