From: Benjamin Auder <benjamin.auder@somewhere>
Date: Wed, 30 Oct 2019 14:04:07 +0000 (+0100)
Subject: Revert sample.R back to working code
X-Git-Url: https://git.auder.net/variants/current/doc/css/vendor/R.css?a=commitdiff_plain;h=778a955e6830f48306f2e35322440c5f9a0adaf3;p=morpheus.git

Revert sample.R back to working code
---

diff --git a/pkg/R/sampleIO.R b/pkg/R/sampleIO.R
index 753e00d..6fa38ae 100644
--- a/pkg/R/sampleIO.R
+++ b/pkg/R/sampleIO.R
@@ -51,7 +51,7 @@ generateSampleIO = function(n, p, β, b, link)
 	{
 		index = c(index, rep(i, classes[i]))
 		newXblock = cbind( MASS::mvrnorm(classes[i], zero_mean, id_sigma), 1 )
-		arg_link = newXblock %*% β
+		arg_link = newXblock %*% β[,i] #β
 		probas =
 			if (link == "logit")
 			{
@@ -61,10 +61,10 @@ generateSampleIO = function(n, p, β, b, link)
 			else #"probit"
 				pnorm(arg_link)
 		probas[is.nan(probas)] = 1 #overflow of exp(x)
-		probas = rowSums(p * probas)
+		#probas = rowSums(p * probas)
 		X = rbind(X, newXblock)
-		Y = c( Y, vapply(probas, function(p) (ifelse(p >= .5, 1, 0)), 1) )
-		#Y = c( Y, vapply(probas, function(p) (rbinom(1,1,p)), 1) )
+		#Y = c( Y, vapply(probas, function(p) (ifelse(p >= .5, 1, 0)), 1) )
+		Y = c( Y, vapply(probas, function(p) (rbinom(1,1,p)), 1) )
 	}
 	shuffle = sample(n)
 	# Returned X should not contain an intercept column (it's an argument of estimation
diff --git a/reports/multistart.R b/reports/multistart.R
index c5d9f51..252de91 100644
--- a/reports/multistart.R
+++ b/reports/multistart.R
@@ -2,7 +2,7 @@ library(morpheus)
 
 testMultistart <- function(N, n, d, K, p, beta, b, link, nstart, ncores)
 {
-  ms <- multiRun(
+  res <- multiRun(
     list(n=n,p=p,beta=beta,b=b,optargs=list(K=K,d=d,link=link,nstart=nstart)),
     list(
       function(fargs) {
@@ -11,11 +11,11 @@ testMultistart <- function(N, n, d, K, p, beta, b, link, nstart, ncores)
         K <- fargs$optargs$K
         op <- optimParams(K, fargs$optargs$link, fargs$optargs)
         x_init <- list(p=rep(1/K,K-1), beta=fargs$mu, b=rep(0,K))
-				res <- NULL
+				res2 <- NULL
 				tryCatch({
-          res <- do.call(rbind, op$run(x_init))
+          res2 <- do.call(rbind, op$run(x_init))
 				}, error = function(e) {})
-				res
+				res2
       },
       function(fargs) {
         # B starts
@@ -58,8 +58,8 @@ testMultistart <- function(N, n, d, K, p, beta, b, link, nstart, ncores)
 			fargs
     }, N=N, ncores=ncores, verbose=TRUE)
   for (i in 1:2)
-    ms[[i]] <- alignMatrices(ms[[i]], ref=rbind(p,beta,b), ls_mode="exact")
-  ms
+    res[[i]] <- alignMatrices(ms[[i]], ref=rbind(p,beta,b), ls_mode="exact")
+  res
 }
 
 #model = binomial
@@ -101,8 +101,8 @@ betas <- list(
 	matrix( c(1,2,-1,0,3,4,-1,-3,0,2, 2,-3,0,1,0,-1,-4,3,2,0), ncol=K ) ) #d=10
 beta <- betas[[ ifelse( d==2, 1, ifelse(d==5,2,3) ) ]]
 
-ms <- testMultistart(N, n, d, K, p, beta, b, link, nstart, ncores)
-ms_params <- list("N"=N, "nc"=ncores, "n"=n, "K"=K, "d"=d, "link"=link,
+mr <- testMultistart(N, n, d, K, p, beta, b, link, nstart, 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, "nstart"=nstart)
 
-save("ms", "ms_params", file=paste("res_",n,"_",d,"_",link,"_",nstart,".RData",sep=""))
+save("mr", "mr_params", file=paste("res_",n,"_",d,"_",link,"_",nstart,".RData",sep=""))