Searched refs:compCharStart (Results 1 – 6 of 6) sorted by relevance
5777 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_Gen()5986 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_Gen_SSE()6142 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_Gen_GibbsGamma()6269 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NUC4()6383 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NUC4_GibbsGamma()6653 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NUC4_FMA()6817 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NUC4_AVX()6989 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NUC4_SSE()7139 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NY98()7214 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in Likelihood_NY98_SSE()[all …]
1220 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in TreeLikelihood_Beagle()1228 nSitesOfPat_Beagle[c] = numSitesOfPat[m->compCharStart + c]; in TreeLikelihood_Beagle()2750 nSitesOfPat_Beagle[site++] = numSitesOfPat[modelSettings[d].compCharStart + c]; in TreeLikelihood_BeagleMultiPartition()2902 nSitesOfPat = numSitesOfPat + (whichSitePats*numCompressedChars) + m->compCharStart; in TreeLikelihood_BeagleMultiPartition()
10161 ps = posSelProbs + m->compCharStart; in PosSelProbs()10239 ps = posSelProbs + m->compCharStart; in PosSelProbs_SSE()10320 ps = posSelProbs + m->compCharStart; in SiteOmegas()10398 ps = posSelProbs + m->compCharStart; in SiteOmegas_SSE()10707 i = compCharPos[c] - m->compCharStart; in PrintAncStates_Bin()10889 i = compCharPos[c] - m->compCharStart; in PrintAncStates_Gen()11065 i = compCharPos[c] - m->compCharStart; in PrintAncStates_NUC4()11184 k = compCharPos[c] - m->compCharStart; in PrintAncStates_Std()12359 j = compCharPos[c] - m->compCharStart; in PrintSiteRates_Gen()12430 j = compCharPos[c] - m->compCharStart; in PrintSiteRates_Std()[all …]
1269 int compCharStart; /* start char among compressed chars */ member
9715 …numSitesOfPat + ((chainId[chain] % chainParams.numChains) * numCompressedChars) + m->compCharStart; in Move_ParsFossilSPRClock()9751 nSites = nSitesOfPat + m->compCharStart; in Move_ParsFossilSPRClock()10261 nSites = nSitesOfPat + m->compCharStart; in Move_ParsSPR()10791 nSites = nSitesOfPat + m->compCharStart; in Move_ParsSPR1()11456 nSites = nSitesOfPat + m->compCharStart; in Move_ParsSPR2()12127 nSites = nSitesOfPat + m->compCharStart; in Move_ParsSPRClock()12645 nSites = nSitesOfPat + m->compCharStart; in Move_ParsTBR1()13156 nSites = nSitesOfPat + m->compCharStart; in Move_ParsTBR2()13529 …t = numSitesOfPat + (chainId[chain] % chainParams.numChains)*numCompressedChars + m->compCharStart; in Move_Pinvar()
410 m->compCharStart = newChar - m->numChars; in AddDummyChars()2423 m->compCharStart = numCompressedChars; in CompressData()2546 a = m->compCharStart + ((i - m->compMatrixStart) / m->nCharsPerSite); in CompressData()2566 m->compCharStop = m->compCharStart + m->numChars; in CompressData()15429 …i = (int) numSitesOfPat[m->compCharStart + (0*numCompressedChars) + (j - m->compMatrixStart)/m->nC… in PrintCompMatrix()15467 i = m->nStates[j-m->compCharStart]; in PrintCompMatrix()15488 i = m->tiIndex[j-m->compCharStart]; in PrintCompMatrix()15496 i = m->bsIndex[j-m->compCharStart]; in PrintCompMatrix()15649 …character %d) of division %d has less \n", spacer, c+m->compCharStart,origChar[c+m->compCharStart]… in ProcessStdChars()15898 origCharPos = origChar[m->compCharStart + c]; in ProcessStdChars()