Mercurial > repos > kuyt002 > vennerable

changeset 1:a1d5429eb58d draft

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Add vennerable dependancies
author kuyt002
date Fri, 20 Jun 2014 15:35:36 +0200
parents 625a5b57edb7
children 47b212acef77
files vennerable/Vennerable.R vennerable/Vennerable.xml vennerable/tool_dependencies.xml
diffstat 3 files changed, 36 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/vennerable/Vennerable.R	Tue Jun 17 13:14:48 2014 +0200
+++ b/vennerable/Vennerable.R	Fri Jun 20 15:35:36 2014 +0200
@@ -34,7 +34,7 @@
 #due to png x11 combination errors its now temporarily a pdf. If not use this line to get a high quality png
 #png(out.file, res = resolution)
 pdf(out.file)
-
+#svg(out.file)
 # plot it
 if (plottype == "ChowRuskey") {
 	plot(Vannot, type = plottype)
--- a/vennerable/Vennerable.xml	Tue Jun 17 13:14:48 2014 +0200
+++ b/vennerable/Vennerable.xml	Fri Jun 20 15:35:36 2014 +0200
@@ -59,7 +59,10 @@
 		<test>
 		</test>
 	</tests>
-
+	<requirements>
+		<requirement type="package" version="3.0">venerable</requirement>
+		<requirement type="set_environment">VENNERABLE_SCRIPT_PATH</requirement>
+	</requirements>
 	<help>
 | 
 
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/vennerable/tool_dependencies.xml	Fri Jun 20 15:35:36 2014 +0200
@@ -0,0 +1,31 @@
+<?xml version="1.0"?>
+<tool_dependency>
+	<set_environment version="1.0">
+		<environment_variable name="VENNERABLE_SCRIPT_PATH" action="set_to">$REPOSITORY_INSTALL_DIR/vennerable/</environment_variable>
+	</set_environment>
+	<package name="R_3_0_3" version="3.0.3">
+        <repository changeset_revision="232ebc8b1c0d" name="package_r_3_0_3" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+    </package>
+	
+	<package name="venerable" version="3.0">
+         <install version="1.0">
+            <actions>
+                <action type="setup_r_environment">
+                    <repository changeset_revision="232ebc8b1c0d" name="package_r_3_0_3" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+                        <package name="R_3_0_3" version="3.0.3" />
+                    </repository>
+                    <package>http://www.bioconductor.org/packages/devel/bioc/src/contrib/BiocGenerics_0.11.2.tar.gz</package>
+                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/graph_1.42.0.tar.gz</package>
+                    <package>http://www.bioconductor.org/packages/release/bioc/src/contrib/RBGL_1.40.0.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/RColorBrewer_1.0-5.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/Rcpp_0.11.2.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/plyr_1.8.1.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/reshape_0.8.5.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/gtools_3.4.1.tar.gz</package>                   
+					<package>http://download.r-forge.r-project.org/src/contrib/Vennerable_3.0.tar.gz</package>
+                </action>
+            </actions>
+        </install>
+	</package>
+</tool_dependency>
+