matthias correction

bin/DEG.R

@@ -13,8 +13,8 @@
 
 ### ---------------------Packages
 #common packages
-packages <- c("igraph", # new unmet dependency for mixOmics
-              "optparse", # to read arguments from a command line
+packages <- c("igraph",
+		      "optparse", # to read arguments from a command line
               "ggplot2", # nice plots
               "gridExtra", # multiple plots on one page
               "grid", # multiple plots on one page for MAplots
@@ -27,9 +27,9 @@ packages <- c("igraph", # new unmet dependency for mixOmics
               
 for(package in packages){
   # if package is installed locally, load
-  if (!(package %in% rownames(installed.packages()))) {
-    install.packages(package, repos="http://cran.univ-paris1.fr")
-  }
+  #if (!(package %in% rownames(installed.packages()))) {
+    install.packages(package, repos = "http://cran.us.r-project.org")
+  #}
   do.call('library', list(package))
 }