Mercurial > repos > yhoogstrate > varscan_mpileup2indel_from_bam

changeset 3:d2424abb9404 draft

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Uploaded
author yhoogstrate
date Wed, 19 Nov 2014 10:04:52 -0500
parents d077c1c3e58e
children 23e5913327b4
files tool_dependencies.xml
diffstat 1 files changed, 15 insertions(+), 16 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu Nov 13 16:24:09 2014 -0500
+++ b/tool_dependencies.xml	Wed Nov 19 10:04:52 2014 -0500
@@ -1,17 +1,24 @@
 <?xml version="1.0"?>
 <tool_dependency>
-	
 	<!--
 	<package name="ncurses" version="5.9">
-		<repository changeset_revision="f62fa47b852d" name="package_ncurses_5_9" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+		<repository name="package_ncurses_5_9" owner="iuc" prior_installation_required="True" />
 	</package>
 	-->
 	
+	<package name="ncurses" version="5.9">
+		<repository changeset_revision="632f1a03db92" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+	</package>
+	
+	<package name="samtools" version="0.1.19">
+		<repository changeset_revision="632f1a03db92" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+	</package>
+	
 	<package name="samtools_parallel_mpileup_0_1_19a" version="0.1.19a">
 		<install version="1.0">
 			<actions>
 				<action type="set_environment_for_install">
-					<repository changeset_revision="f62fa47b852d" name="package_ncurses_5_9" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu">
+					<repository changeset_revision="c0735727b530" name="package_ncurses_5_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
 						<package name="ncurses" version="5.9" />
 					</repository>
 				</action>
@@ -32,8 +39,8 @@
 					<destination>$INSTALL_DIR/bin</destination>
 				</action>
 				<action type="set_environment">
-					<environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
-					<environment_variable name="PATH" action="prepend_to">$REPOSITORY_INSTALL_DIR</environment_variable>
+					<environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+					<environment_variable action="prepend_to" name="PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
 				</action>
 			</actions>
 		</install>
@@ -42,15 +49,7 @@
 		</readme>
 	</package>
 	
-	<package name="ncurses" version="5.9">
-		<repository changeset_revision="40250a414486" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+	<package name="varscan" version="2.3.6">
+		<repository changeset_revision="f82940004c84" name="varscan_version_2" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
 	</package>
-		
-	<package name="samtools" version="0.1.19">
-		<repository changeset_revision="40250a414486" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
-	</package>
-	
-	<package name="varscan" version="2.3.6">
-		<repository changeset_revision="f82940004c84" name="varscan_version_2" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
-	</package>
-</tool_dependency>
\ No newline at end of file
+</tool_dependency>