X-Git-Url: https://git.auder.net/?p=morpheus.git;a=blobdiff_plain;f=reports%2Faccuracy.R;h=63cd5aaf8ddf8b8785b557bd5cb06f13a970e427;hp=2f35792228090b423ecdcd29e6934a8d018b0960;hb=b4aba3cea64aaa51cb4ce6657fad647720262015;hpb=1d014a8640a33f16f0d21244a1419134e8553910 diff --git a/reports/accuracy.R b/reports/accuracy.R index 2f35792..63cd5aa 100644 --- a/reports/accuracy.R +++ b/reports/accuracy.R @@ -1,51 +1,66 @@ -optimBeta <- function(N, n, K, p, beta, b, link, ncores) +optimBeta <- function(N, n, p, beta, b, link, ncores) { - library(morpheus) - res <- multiRun( - list(n=n,p=p,beta=beta,b=b,optargs=list(K=K,link=link)), - list( - # morpheus - function(fargs) { - library(morpheus) - K <- fargs$optargs$K - M <- computeMoments(fargs$X, fargs$Y) - fargs$optargs$M <- M - mu <- computeMu(fargs$X, fargs$Y, fargs$optargs) - op <- optimParams(K,link,fargs$optargs) - x_init <- list(p=rep(1/K,K-1), beta=mu, b=rep(0,K)) - do.call(rbind, op$run(x_init)) - }, - # flexmix - function(fargs) { - library(flexmix) - source("../patch_Bettina/FLXMRglm.R") - K <- fargs$optargs$K - dat <- as.data.frame( cbind(fargs$Y,fargs$X) ) - fm <- flexmix( cbind(V1, 1-V1) ~ .-V1, data=dat, k=K, - model = FLXMRglm(family = binomial(link = link)) ) - p <- mean(fm@posterior[["scaled"]][,1]) - out <- refit(fm) - beta_b <- sapply( seq_len(K), function(i) { - as.double( out@components[[1]][[i]][,1] ) - } ) - rbind(p, beta_b[2:nrow(beta_b),], beta_b[1,]) - } ), - prepareArgs = function(fargs, index) { - library(morpheus) - io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$optargs$link) - fargs$X = io$X - fargs$Y = io$Y - fargs$optargs$K = ncol(fargs$beta) - fargs$optargs$M = computeMoments(io$X,io$Y) - fargs - }, N=N, ncores=ncores, verbose=TRUE) - p <- c(p, 1-sum(p)) - for (i in 1:2) - res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact") - res + library(morpheus) + res <- multiRun( + list(n=n, p=p, beta=beta, b=b, link=link), + list( + # morpheus + function(fargs) { + library(morpheus) + K <- ncol(fargs$beta) + M <- computeMoments(fargs$X, fargs$Y) + mu <- computeMu(fargs$X, fargs$Y, list(K=K, M=M)) + op <- optimParams(fargs$X, fargs$Y, K, fargs$link, M, 1) #only 1 OpenMP core + x_init <- list(p=rep(1/K,K-1), beta=mu, b=rep(0,K)) + res2 <- NULL + tryCatch({ + res2 <- do.call(rbind, op$run(x_init)) + }, error = function(e) {}) + res2 + } + , + # flexmix + function(fargs) { + library(flexmix) + source("../patch_Bettina/FLXMRglm.R") + K <- ncol(fargs$beta) + dat <- as.data.frame( cbind(fargs$Y,fargs$X) ) + res2 <- NULL + tryCatch({ + fm <- flexmix( cbind(V1, 1-V1) ~ ., data=dat, k=K, + model = FLXMRglm(family = binomial(link = link)) ) + pf <- colMeans(fm@posterior[["scaled"]]) + out <- refit(fm) + beta_b <- sapply( seq_len(K), function(i) { + as.double( out@components[[1]][[i]][,1] ) + } ) + res2 <- rbind(pf, beta_b[2:nrow(beta_b),], beta_b[1,]) + }, error = function(e) { + res2 <- NA + }) + res2 + } + ), + prepareArgs = function(fargs, index) { + library(morpheus) + io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$link) + fargs$X = io$X + fargs$Y = io$Y + fargs + }, N=N, ncores=ncores, verbose=TRUE) + p <- c(p, 1-sum(p)) + for (i in 1:length(res)) { + for (j in N:1) { + if (is.null(res[[i]][[j]]) || is.na(res[[i]][[j]])) + res[[i]][[j]] <- NULL + } + print(paste("Count valid runs for ",i," = ",length(res[[i]]),sep="")) + res[[i]] <- alignMatrices(res[[i]], ref=rbind(p,beta,b), ls_mode="exact") + } + res } -#model = binomial; default values: +# Default values: link = "logit" N <- 10 d <- 2 @@ -55,46 +70,38 @@ ncores <- 1 cmd_args <- commandArgs() for (arg in cmd_args) { - if (substr(arg,1,1)!='-') { - spl <- strsplit(arg,'=')[[1]] - if (spl[1] == "nc") { - ncores <- as.integer(spl[2]) - } else if (spl[1] == "N") { - N <- as.integer(spl[2]) - } else if (spl[1] == "n") { - n <- as.integer(spl[2]) - } else if (spl[1] == "d") { - d <- as.integer(spl[2]) - } else if (spl[1] == "link") { - link <- spl[2] - } - } + if (substr(arg,1,1)!='-') { + spl <- strsplit(arg,'=')[[1]] + if (spl[1] == "nc") { + ncores <- as.integer(spl[2]) + } else if (spl[1] == "N") { + N <- as.integer(spl[2]) + } else if (spl[1] == "n") { + n <- as.integer(spl[2]) + } else if (spl[1] == "d") { + d <- as.integer(spl[2]) + } else if (spl[1] == "link") { + link <- spl[2] + } + } } if (d == 2) { - K <- 2 - p <- .5 - b <- c(-.2, .5) - beta <- matrix( c(1,-2, 3,1), ncol=K ) + p <- .5 + b <- c(-.2, .5) + beta <- matrix( c(1,-2, 3,1), ncol=2 ) } else if (d == 5) { - K <- 2 - p <- .5 - b <- c(-.2, .5) - beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=K ) + p <- .5 + b <- c(-.2, .5) + beta <- matrix( c(1,2,-1,0,3, 2,-3,0,1,0), ncol=2 ) } else if (d == 10) { - K <- 3 - p <- c(.3, .3) - b <- c(-.2, 0, .5) - beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2), ncol=K ) -} else if (d == 20) { - K <- 3 - p <- c(.3, .3) - b <- c(-.2, 0, .5) - beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2,2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2,1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0,1,1,2,2,-2,-2,3,1,0,0), ncol=K ) + p <- c(.3, .3) + b <- c(-.2, 0, .5) + beta <- matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0, -1,1,3,-1,0,0,2,0,1,-2), ncol=3 ) } -mr <- optimBeta(N, n, K, p, beta, b, link, ncores) -mr_params <- list("N"=N, "n"=n, "K"=K, "d"=d, "link"=link, - "p"=c(p,1-sum(p)), "beta"=beta, "b"=b) +mr <- optimBeta(N, n, p, beta, b, link, ncores) +mr_params <- list("N"=N, "nc"=ncores, "n"=n, "link"=link, + "p"=c(p,1-sum(p)), "beta"=beta, "b"=b) -save("mr", "mr_params", file=paste("multirun_",d,"_",link,".RData",sep="")) +save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,".RData",sep=""))