Mercurial > repos > biomonika > linkyx

changeset 28:45772982cb9a

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
fixed invalid XML
author biomonika
date Tue, 10 Feb 2015 10:43:46 -0500
parents 91f05fd5f5f2
children ba6849a9389e
files tool_dependencies.xml
diffstat 1 files changed, 17 insertions(+), 18 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Fri Sep 12 00:34:58 2014 -0400
+++ b/tool_dependencies.xml	Tue Feb 10 10:43:46 2015 -0500
@@ -1,25 +1,9 @@
+<?xml version="1.0"?>
 <tool_dependency>
     <set_environment version="1.0">
         <environment_variable name="LINKYX_PATH" action="set_to">$REPOSITORY_INSTALL_DIR</environment_variable>
     </set_environment>
 
-    <package name="samtools" version="0.1.19">
-        <install version="1.0">
-            <actions>
-                <action type="download_by_url">http://sourceforge.net/projects/samtools/files/samtools/0.1.19/samtools-0.1.19.tar.bz2</action>
-                <action type="shell_command">sed -i 's/O2/O2 -fPIC/' Makefile</action>
-                <action type="shell_command">make</action>
-                <action type="set_environment">
-                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
-                    <environment_variable name="SAMTOOLS" action="set_to">$INSTALL_DIR</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>Compiling samtools with fPIC in order to create bam.h and compiled libbam.a files</readme>
-    </package>
-
-<?xml version="1.0"?>
-<tool_dependency>
   <package name="perl" version="5.18.1">
       <repository changeset_revision="091a97f8c585" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
@@ -44,4 +28,19 @@
             Bundle::BioPerl
         </readme>
     </package>
-</tool_dependency>
\ No newline at end of file
+
+    <package name="samtools" version="0.1.19">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://sourceforge.net/projects/samtools/files/samtools/0.1.19/samtools-0.1.19.tar.bz2</action>
+                <action type="shell_command">sed -i 's/O2/O2 -fPIC/' Makefile</action>
+                <action type="shell_command">make</action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
+                    <environment_variable name="SAMTOOLS" action="set_to">$INSTALL_DIR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>Compiling samtools with fPIC in order to create bam.h and compiled libbam.a files</readme>
+    </package>
+</tool_dependency>