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

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<?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>