X-Git-Url: https://git.auder.net/?p=morpheus.git;a=blobdiff_plain;f=reports%2Faccuracy.R;h=63cd5aaf8ddf8b8785b557bd5cb06f13a970e427;hp=535f88f6299fa3f45d18685fac17b673d776b477;hb=b4aba3cea64aaa51cb4ce6657fad647720262015;hpb=01bd5c5b56b403b5487e232603643307d3821ed0

diff --git a/reports/accuracy.R b/reports/accuracy.R
index 535f88f..63cd5aa 100644
--- a/reports/accuracy.R
+++ b/reports/accuracy.R
@@ -1,122 +1,107 @@
-optimBeta <- function(N, n, K, p, beta, b, link, weights, 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, weights=weights)),
-		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$optargs)
-        op <- optimParams(K,fargs$optargs$link,fargs$optargs)
+  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 <- NULL
+        tryCatch({
           res2 <- do.call(rbind, op$run(x_init))
-				}, error = function(e) {})
-				res2
-			}
-#			,
-#			# flexmix
-#			function(fargs) {
-#				library(flexmix)
-#				source("../patch_Bettina/FLXMRglm.R")
-#				K <- fargs$optargs$K
-#				dat <- as.data.frame( cbind(fargs$Y,fargs$X) )
-#				res2 <- NULL
-#				tryCatch({
-#					fm <- flexmix( cbind(V1, 1-V1) ~ .-V1, data=dat, k=K,
-#						model = FLXMRglm(family = binomial(link = link)) )
-#					p <- mean(fm@posterior[["scaled"]][,1])
-#					out <- refit(fm)
-#					beta_b <- sapply( seq_len(K), function(i) {
-#						as.double( out@components[[1]][[i]][,1] )
-#					} )
-#					res2 <- rbind(p, beta_b[2:nrow(beta_b),], beta_b[1,])
-#				}, error = function(e) {
-#					res2 <- NA
-#				})
-#				res2
-#			}
-		),
-		prepareArgs = function(fargs, index) {
-			library(morpheus)
-			io = generateSampleIO(fargs$n, fargs$p, fargs$beta, fargs$b, fargs$optargs$link)
-			fargs$X = io$X
-			fargs$Y = io$Y
-			fargs$optargs$K = ncol(fargs$beta)
-			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
+        }, 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
 n <- 1e4
 ncores <- 1
-strw <- "1-1-1"
-weights <- c(1,1,1)
 
 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]
-		} else if (spl[1] == "weights") {
-			strw <- spl[2]
-		  weights <- as.numeric(unlist(strsplit(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, weights, ncores)
-mr_params <- list("N"=N, "nc"=ncores, "n"=n, "K"=K, "d"=d, "link"=link,
-	"p"=c(p,1-sum(p)), "beta"=beta, "b"=b, "weights"=weights)
+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("res_",n,"_",d,"_",link,"_",strw,".RData",sep=""))
+save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,".RData",sep=""))