# HG changeset patch
# User jbrayet
# Date 1439543786 14400
# Node ID b7fd2ce998eeccc53354559838c5cef34fe99034
# Parent  684afb8601267c53d7386013b52596a00637cfc4
Uploaded

diff -r 684afb860126 -r b7fd2ce998ee tool_dependencies.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Fri Aug 14 05:16:26 2015 -0400
@@ -0,0 +1,37 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <package name="R" version="3.1.2">
+      <repository changeset_revision="41f43a2064ba" name="package_r_3_1_2" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+  </package>
+      <package name="sequenza" version="2.1.1">
+        <install version="1.0">
+            <actions>
+                <action type="setup_r_environment">
+                    <repository changeset_revision="41f43a2064ba" name="package_r_3_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <package name="R" version="3.1.2" />
+                    </repository>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/BiocGenerics_0.14.0.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/S4Vectors_0.6.3.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/IRanges_1.0.16.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/GenomeInfoDb_1.4.1.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/XVector_0.8.0.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/GenomicRanges_1.20.5.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/copynumber_1.8.0.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/squash_1.0.7.tar.gz</package>
+                    <package>https://github.com/jbrayet/R_package_Galaxy/raw/master/sequenza_2.1.1.tar.gz</package>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            Hmisc: Harrell Miscellaneous
+
+            Contains many functions useful for data analysis, high-level graphics, utility operations,
+            functions for computing sample size and power, importing and annotating datasets,
+            imputing missing values, advanced table making, variable clustering, character string
+            manipulation, conversion of R objects to LaTeX code, and recoding variables.
+
+            http://biostat.mc.vanderbilt.edu/Hmisc
+            https://github.com/harrelfe/Hmisc
+        </readme>
+    </package>
+</tool_dependency>