# HG changeset patch # User yhoogstrate # Date 1400577985 14400 # Node ID 86f91bf4ab4cd75ae5e7ddaa6562e4ffd12199f7 # Parent fa476f8e1f9e2f2ef64b5656154be4dcbb3e8f49 Uploaded diff -r fa476f8e1f9e -r 86f91bf4ab4c tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Tue May 20 05:26:25 2014 -0400 @@ -0,0 +1,31 @@ + + + + + + + + + + + + + + + + $INSTALL_DIR + echo "source('http://bioconductor.org/biocLite.R')" > $INSTALL_DIR/runme.R + echo "installme=c('edgeR','limma')" >> $INSTALL_DIR/runme.R + echo "biocLite()" >> $INSTALL_DIR/runme.R + echo "biocLite(installme)" >> $INSTALL_DIR/runme.R + echo "install.packages(c('stringr','gplots'),dependencies=T,repos='http://cran.us.r-project.org')" >> $INSTALL_DIR/runme.R + echo "quit(save='no')" >> $INSTALL_DIR/runme.R + export PATH=$PATH && export R_HOME=$R_HOME && export R_LIBS=$R_LIBS && R CMD BATCH $INSTALL_DIR/runme.R + + + + Installs the bioc packages edgeR & Limma + + + +