Mercurial > repos > nml > srst2

diff tool_dependencies.xml @ 1:599a4dc309aa draft

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planemo upload commit 1ea98fb88a93a571beda5bbd56449c946860a258
author nml
date Wed, 01 Mar 2017 12:39:11 -0500
parents 6f870ed59b6e
children
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--- a/tool_dependencies.xml	Mon Feb 06 12:31:04 2017 -0500
+++ b/tool_dependencies.xml	Wed Mar 01 12:39:11 2017 -0500
@@ -4,15 +4,15 @@
         <install version="1.0">
             <actions_group>
                 <actions>
-                    <action sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb" type="download_by_url">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action>
+                    <action type="download_by_url" sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action>
                     <action type="make_directory">$INSTALL_DIR/vfdb</action>
                     <action type="move_directory_files">
                         <source_directory>vfdb</source_directory>
                         <destination_directory>$INSTALL_DIR/vfdb</destination_directory>
                     </action>
                     <action type="set_environment">
-                        <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
-                        <environment_variable action="set_to" name="VF_PATH">$INSTALL_DIR</environment_variable>
+                        <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
+                        <environment_variable name="VF_PATH" action="set_to">$INSTALL_DIR</environment_variable>
                     </action>
                     <action type="shell_command">ls -lrt</action>
                     <action type="shell_command">echo $INSTALL_DIR</action>
@@ -21,14 +21,4 @@
             </actions_group>
         </install>
     </package>
-    
-    <package name="srst2" version="0.1.4.6">
-    	<repository changeset_revision="79a05e500381" name="package_srst2_0_1_4_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-	<package name="samtools" version="0.1.18">
-		<repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
-	</package>
-	<package name="bowtie2" version="2.1.0">
-		<repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
-	</package>
 </tool_dependency>