Mercurial > repos > yating-l > jbrowsearchivecreator

diff tool_dependencies.xml @ 7:5d5fdcb798da draft

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planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit 12fb52d5b285935b2353d93a5aa291838df7893e
author yating-l
date Fri, 20 Apr 2018 13:51:23 -0400
parents 237707a6b74d
children 7cb67cbbd8e5
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line diff
--- a/tool_dependencies.xml	Thu Feb 15 17:05:05 2018 -0500
+++ b/tool_dependencies.xml	Fri Apr 20 13:51:23 2018 -0400
@@ -52,11 +52,11 @@
         </install>
     </package>
 
-    <package name="jbrowse_tools" version="1.12.4">
+    <package name="jbrowse_tools" version="1.13.1">
         <install version="1.0">
             <actions_group>
                 <actions architecture="x86_64" os="linux">
-                    <action type="download_by_url">https://github.com/GMOD/jbrowse/releases/download/1.12.4-release/JBrowse-1.12.4.zip</action>
+                    <action type="download_by_url">https://github.com/GMOD/jbrowse/releases/download/1.13.1-release/JBrowse-1.13.1.zip</action>
                     <action type="make_directory">$INSTALL_DIR/jbrowse</action>
                     <action type="shell_command">
                         export HOME=$INSTALL_DIR/jbrowse &amp;&amp; ./setup.sh
@@ -77,4 +77,23 @@
          <readme>The perl scripts for converting flat files to json.</readme>
     </package>
 
+    <package name="gff3sort" version="1.0">
+        <install version="1.0">
+            <actions_group>
+                <actions architecture="x86_64" os="linux">
+                <action type="download_by_url">https://github.com/billzt/gff3sort/archive/v0.1-alpha.zip</action>
+                    <action type="make_directory">$INSTALL_DIR/gff3sort</action>
+                    <action type="move_directory_files">
+                        <source_directory>.</source_directory>
+                        <destination_directory>$INSTALL_DIR/gff3sort</destination_directory>
+                    </action>
+                    <action type="set_environment">
+                        <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/gff3sort</environment_variable>
+                    </action>
+                </actions>
+            </actions_group>
+        </install>
+    <readme>A Perl Script to sort gff3 files and produce suitable results for tabix tools. </readme>
+    </package>
+
 </tool_dependency>