Mercurial > repos > drosofff > package_ged_oases

changeset 0:853ebf512cc7 draft

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planemo upload for repository https://bitbucket.org/drosofff/gedtools/
author drosofff
date Sun, 21 Jun 2015 14:34:59 -0400
parents
children 76e8c94ea259
files tool_dependencies.xml
diffstat 1 files changed, 33 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Sun Jun 21 14:34:59 2015 -0400
@@ -0,0 +1,33 @@
+<?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" />
+  </package>
+  <package name="oases" version="0.2.08_7a32460a60929b510037952ae815bb6e29b68123">
+    <install version="1.0">
+      <actions>
+        <action type="shell_command">git clone git://github.com/dzerbino/oases.git</action>
+        <action type="shell_command">git reset --hard 7a32460a60929b510037952ae815bb6e29b68123</action>
+        <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">
+            <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="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>
+        </action>
+      </actions>
+    </install>
+  </package>
+</tool_dependency>