diff seal-galaxy-cc1b1911/tool_dependencies.xml @ 0:244073d9abc1 draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/seal-galaxy-cc1b1911/tool_dependencies.xml	Wed Oct 15 09:41:10 2014 -0400
@@ -0,0 +1,39 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <package name="hadoop-galaxy" version="0.1.3">
+    <repository changeset_revision="30bd2584b6a0" name="hadoop_galaxy" owner="crs4" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+  </package>
+
+  <package name="seal" version="13986416aa79561bd0102cb7ccc1e0668ac9f0a4">
+    <install version="1.0">
+      <actions>
+        <action type="shell_command">git clone https://github.com/crs4/seal.git</action>
+        <action type="shell_command">git checkout master</action>
+        <action type="shell_command">git reset --hard 13986416aa79561bd0102cb7ccc1e0668ac9f0a4</action>
+        <!--<action type="download_by_url">https://github.com/crs4/seal/archive/0.4.0-rc2.tar.gz</action>-->
+        <action type="set_environment_for_install">
+          <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+        </action>
+        <action type="make_directory">$INSTALL_DIR/lib/python</action>
+        <action type="shell_command">python setup.py build_hadoop_bam</action>
+        <action type="shell_command">python setup.py install --prefix=$INSTALL_DIR --install-lib=$INSTALL_DIR/lib/python</action>
+        <action type="set_environment">
+          <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+          <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+        </action>
+      </actions>
+    </install>
+    <readme>
+This package has a number of dependencies that need to be installed before it:
+
+* Pydoop needs to be installed (it will be pulled down as a dependency; see
+that package's instructions for it's own installation pointers)
+
+* protobuf-python
+
+* JDK and Ant (ant version at least version 1.7)
+
+Please see http://biodoop-seal.sourceforge.net/installation_dependencies.html for more details.
+    </readme>
+  </package>
+</tool_dependency>