Mercurial > repos > shians > shrnaseq

changeset 38:2914798edd59

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- Full script replacement
author shian_su <registertonysu@gmail.com>
date Thu, 20 Nov 2014 11:02:19 +1100
parents 9cbb07225ffb
children f90ae446dd1d
files tool_dependencies.xml
diffstat 1 files changed, 19 insertions(+), 9 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu Nov 20 11:00:58 2014 +1100
+++ b/tool_dependencies.xml	Thu Nov 20 11:02:19 2014 +1100
@@ -5,14 +5,24 @@
         <repository name="package_r_3_1_1" owner="fubar" prior_installation_required="True" />
     </package>
 
-    <package name="R" version="3.0.1" />
-        <actions>
-            <action type="setup_r_environment">
-                <repository name="package_r_3_0_1" owner="iuc">
-                    <package name="R" version="3.0.1" />
-                </repository>
-                <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_0_18BiocGenerics_0.6.0.tar.gz6</package>
-            </action>
-        </actions>
+    <package name="shrnaseq" version="1.0.10">
+        <install version="1.0">
+            <actions>
+                <action type="setup_r_environment">
+                    
+                    <repository name="package_r_3_1_1" owner="fubar">
+                        <package name="R_3_1_1" version="3.1.1" />
+                    </repository>
+                    <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/locfit_1.5-9.1.tar.gz</package>
+                    <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/statmod_1.4.20.tar.gz</package>
+                    <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/limma_3.20.9.tar.gz</package>
+                    <package>https://github.com/fubar2/galaxy_tool_source/blob/master/RELEASE_2_14/edgeR_3.6.8.tar.gz</package>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            shrnaseq analysis using edgeR bioConductor package.
+            http://bioconductor.org/packages/release/bioc/html/edgeR.html
+        </readme>
     </package>
 </tool_dependency>