Mercurial > repos > drosofff > package_ged_oases

changeset 1:76e8c94ea259 draft default tip

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planemo upload for repository https://bitbucket.org/drosofff/gedtools/
author drosofff
date Mon, 22 Jun 2015 10:38:03 -0400
parents 853ebf512cc7
children
files tool_dependencies.xml
diffstat 1 files changed, 4 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Sun Jun 21 14:34:59 2015 -0400
+++ b/tool_dependencies.xml	Mon Jun 22 10:38:03 2015 -0400
@@ -1,7 +1,7 @@
 <?xml version="1.0"?>
 <tool_dependency>
   <package name="velvet" version="1.2.10_9adf09f7ded7fedaf6b0e5e4edf9f46602e263d3">
-      <repository changeset_revision="b3e2c0f12e11" name="package_ged_velvet" owner="drosofff" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+      <repository changeset_revision="517ddcce2fa4" name="package_ged_velvet" owner="drosofff" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
   </package>
   <package name="oases" version="0.2.08_7a32460a60929b510037952ae815bb6e29b68123">
     <install version="1.0">
@@ -11,21 +11,17 @@
         <action type="shell_command">sed -i -e "32s/cleanobj//" Makefile</action>
         <action type="shell_command">sed -i -e "32s/doc//" Makefile</action>
         <action type="set_environment_for_install">
-          <repository changeset_revision="b3e2c0f12e11" name="package_ged_velvet" owner="drosofff" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">
+          <repository changeset_revision="517ddcce2fa4" name="package_ged_velvet" owner="drosofff" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">
             <package name="velvet" version="1.2.10_9adf09f7ded7fedaf6b0e5e4edf9f46602e263d3" />
           </repository>
         </action>
-        <action type="shell_command">VELVETPATH=`echo $PATH | awk -F: '{print $1}'`; make VELVET_DIR=$VELVETPATH MAXKMERLENGTH=70</action>
+        <action type="shell_command">make VELVET_DIR=$VELVET_DIR MAXKMERLENGTH=70</action>
         <action type="move_directory_files">
             <source_directory>.</source_directory>
             <destination_directory>$INSTALL_DIR</destination_directory>
         </action>
-<!--        <action type="move_file">
-            <source>oases</source>
-            <destination>$INSTALL_DIR</destination>
-        </action> -->
         <action type="set_environment">
-          <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
+          <environment_variable action="prepend_to" name="PATH">$ENV[VELVET_DIR]:$INSTALL_DIR</environment_variable>
         </action>
       </actions>
     </install>