prepare EMGLLF / EMGrank wrappers, simplify folder generateTestData

[valse.git] / src / test / generate_test_data / generateRunSaveTest_EMGLLF.R

diff --git a/src/test/generate_test_data/generateRunSaveTest_EMGLLF.R b/src/test/generate_test_data/generateRunSaveTest_EMGLLF.R
index 2c2dc2a..fe8f847 100644 (file)
--- a/src/test/generate_test_data/generateRunSaveTest_EMGLLF.R
+++ b/src/test/generate_test_data/generateRunSaveTest_EMGLLF.R
@@ -1,34 +1,48 @@
+source("EMGLLF.R")
+
 generateRunSaveTest_EMGLLF = function(n=200, p=15, m=10, k=3, mini=5, maxi=10,
        gamma=1., lambda=0.5, tau=1e-6)
 {
-       testFolder = "data/"
+       testFolder = "../data/"
        dir.create(testFolder, showWarnings=FALSE, mode="0755")
-       delimiter = " "
 
-       #save inputs
        require(valse)
-       params = valse:::basic_Init_Parameters(n, p, m, k)
-       io = generateIOdefault(n, p, m, k)
-       write.table(paste(testFolder,"phiInit",sep=""), params$phiInit, sep=delimiter);
-       write.table(paste(testFolder,"rhoInit",sep=""), params$rhoInit, sep=delimiter);
-       write.table(paste(testFolder,"piInit",sep=""), params$piInit, sep=delimiter);
-       write.table(paste(testFolder,"gamInit",sep=""), params$gamInit, sep=delimiter);
-       write.table(paste(testFolder,"mini",sep=""), mini, sep=delimiter);
-       write.table(paste(testFolder,"maxi",sep=""), maxi, sep=delimiter);
-       write.table(paste(testFolder,"gamma",sep=""), gamma, sep=delimiter);
-       write.table(paste(testFolder,"lambda",sep=""), lambda, sep=delimiter);
-       write.table(paste(testFolder,"X",sep=""), io$X, sep=delimiter);
-       write.table(paste(testFolder,"Y",sep=""), io$Y, sep=delimiter);
-       write.table(paste(testFolder,"tau",sep=""), tau, sep=delimiter);
-       write.table(paste(testFolder,"dimensions",sep=""), c(n,p,m,k), sep=delimiter);
+       params = valse:::basicInitParameters(n, p, m, k)
+       xy = valse:::generateXYdefault(n, p, m, k)
+
+       #save inputs
+       write.table(as.double(params$phiInit), paste(testFolder,"phiInit",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(params$rhoInit), paste(testFolder,"rhoInit",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(params$piInit), paste(testFolder,"piInit",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(params$gamInit), paste(testFolder,"gamInit",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.integer(mini), paste(testFolder,"mini",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.integer(maxi), paste(testFolder,"maxi",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(gamma), paste(testFolder,"gamma",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(lambda), paste(testFolder,"lambda",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(xy$X), paste(testFolder,"X",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(xy$Y), paste(testFolder,"Y",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.double(tau), paste(testFolder,"tau",sep=""),
+               row.names=F, col.names=F)
+       write.table(as.integer(c(n,p,m,k)), paste(testFolder,"dimensions",sep=""),
+               row.names=F, col.names=F)
 
        res = EMGLLF(params$phiInit,params$rhoInit,params$piInit,params$gamInit,mini,maxi,
-               gamma,lambda,io$X,io$Y,tau);
+               gamma,lambda,xy$X,xy$Y,tau)
 
        #save outputs
-       write.table(paste(testFolder,"phi",sep=""), res$phi, sep=delimiter);
-       write.table(paste(testFolder,"rho",sep=""), res$rho, sep=delimiter);
-       write.table(paste(testFolder,"pi",sep=""), res$pi, sep=delimiter);
-       write.table(paste(testFolder,"LLF",sep=""), res$LLF, sep=delimiter);
-       write.table(paste(testFolder,"S",sep=""), res$S, sep=delimiter);
+       write.table(as.double(res$phi), paste(testFolder,"phi",sep=""), row.names=F, col.names=F)
+       write.table(as.double(res$rho), paste(testFolder,"rho",sep=""), row.names=F, col.names=F)
+       write.table(as.double(res$pi), paste(testFolder,"pi",sep=""), row.names=F, col.names=F)
+       write.table(as.double(res$LLF), paste(testFolder,"LLF",sep=""), row.names=F, col.names=F)
+       write.table(as.double(res$S), paste(testFolder,"S",sep=""), row.names=F, col.names=F)
 }