Mercurial > repos > yhoogstrate > edger_with_design_matrix

diff tool_dependencies.xml @ 83:b2738b4d7c8c draft

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Uploaded
author yhoogstrate
date Wed, 19 Nov 2014 08:55:40 -0500
parents c5bd139cd3e8
children ddcc677fb13d
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu Nov 13 16:10:47 2014 -0500
+++ b/tool_dependencies.xml	Wed Nov 19 08:55:40 2014 -0500
@@ -1,14 +1,14 @@
 <?xml version="1.0"?>
 <tool_dependency>
 	<package name="R" version="3.0.3">
-		<repository changeset_revision="9ff23e0b280b" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+		<repository changeset_revision="9ff23e0b280b" name="package_r_3_0_3" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
 	</package>
 	
 	<package name="biocLite_edgeR_limma" version="latest">
 		<install version="1.0"> 
 			<actions>
 				<action type="set_environment_for_install">
-					<repository changeset_revision="9ff23e0b280b" name="package_r_3_0_3" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu/">
+					<repository changeset_revision="9ff23e0b280b" name="package_r_3_0_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
 						<package name="R" version="3.0.3" />
 					</repository>
 					
@@ -30,7 +30,7 @@
 	
 	<!-- instead of using "convert", make use of "gm convert" -->
 	<package name="graphicsmagick" version="1.3.18">
-		<repository changeset_revision="2fd4eb971ba5" name="package_graphicsmagick_1_3" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu/" />
+		<repository changeset_revision="bff3f66adff2" name="package_graphicsmagick_1_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
 	</package>
 	
 	<package name="design_matrix_creator" version="1.0.0">
@@ -44,7 +44,8 @@
 					<file mode="755">$INSTALL_DIR/bin/design_matrix_creator</file>
 				</action>
 				<action type="set_environment">
-					<environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+					<environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+					<environment_variable action="prepend_to" name="PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
 				</action>
 			</actions>
 		</install>