view tool_dependencies.xml @ 5:69d798291360 draft

Updated tool dependency definition.

<?xml version="1.0"?>
<tool_dependency>
  <package name="libx11" version="1.5.0">
      <repository changeset_revision="06f3f6f667b0" name="package_libx11_1_5_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="libxproto" version="7.0.23">
      <repository changeset_revision="fd9ca3b78488" name="package_libxproto_7_0_23" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="libxcb" version="1.9.1">
      <repository changeset_revision="e088e0d75718" name="package_libxcb_1_9_1" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="emboss" version="5.0.0">
      <install version="1.0">
          <actions>
              <action type="download_by_url">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/EMBOSS-5.0.0.tar.gz</action>
                <action type="set_environment_for_install">
                  <repository changeset_revision="06f3f6f667b0" name="package_libx11_1_5_0" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
                    <repository changeset_revision="fd9ca3b78488" name="package_libxproto_7_0_23" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
                    <repository changeset_revision="e088e0d75718" name="package_libxcb_1_9_1" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
                </action>
                <action type="shell_command">
                    export CFLAGS="-I$XPROTO_INCLUDES" &amp;&amp; \
                    export LDFLAGS="-L$XCB_LIBS" &amp;&amp; \
                    ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR
                </action>
                <action type="shell_command">make &amp;&amp; make install</action>
                <action extract="true" type="download_file">ftp://emboss.open-bio.org/pub/EMBOSS/old/5.0.0/PHYLIP-3.6b.tar.gz</action>
                <action type="change_directory">PHYLIP-3.6b</action>
                <action type="shell_command">
                    export CFLAGS="-I$XPROTO_INCLUDES" &amp;&amp; \
                    export LDFLAGS="-L$XCB_LIBS" &amp;&amp; \
                    ./configure --prefix=$INSTALL_DIR --x-includes=$X11_INCLUDE_DIR --x-libraries=$X11_LIB_DIR
                </action>
                <action type="shell_command">make &amp;&amp; make install</action>
                <action type="set_environment">
                  <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
These links provide information for building the Emboss package in most environments.

System requirements
http://emboss.sourceforge.net/download/#Requirements

Platform-dependent notes
http://emboss.sourceforge.net/download/#Platforms
        </readme>
    </package>
</tool_dependency>