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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_psort_3_0_3 commit bd736b6361ba659a1251dd1a1a05f7e3b633bdf5
author iuc
date Tue, 22 Dec 2015 19:29:06 -0500
parents b847990dc2fa
children
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<?xml version="1.0"?>
<tool_dependency>
    <package name="perl" version="5.18.1">
        <repository changeset_revision="d5193a5f6203" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
    </package>
    <package name="legacy_blast" version="2.2.6">
        <repository changeset_revision="f55a0c6d1484" name="package_legacy_blast_2_2_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
    </package>

    <package name="psort" version="3.0.3">
        <install version="1.0">
            <actions>
                <action type="download_by_url">http://www.psort.org/download/libpsortb-1.0.tar.gz</action>
                <action type="autoconf" />

                <action type="download_by_url">ftp://lausanne.isb-sib.ch/pub/software/unix/pftools/pft2.3/pft2.3.5.d.tar.gz</action>
                <action type="shell_command">make</action>
                <action type="move_directory_files">
                    <source_directory>.</source_directory>
                    <destination_directory>$INSTALL_DIR/pft</destination_directory>
                </action>
                <!-- install blastall -->
                <!-- populate the environment variables from the dependend repos -->
                <action type="set_environment_for_install">
                   <repository changeset_revision="f55a0c6d1484" name="package_legacy_blast_2_2_6" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                        <package name="legacy_blast" version="2.2.6" />
                    </repository>
                </action>

                <action type="set_environment">
                    <environment_variable action="set_to" name="LIBPSORTB_ROOT_PATH">$INSTALL_DIR</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/pft</environment_variable>
                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib</environment_variable>
                </action>

                <action type="setup_perl_environment">
                    <repository changeset_revision="d5193a5f6203" name="package_perl_5_18" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                        <package name="perl" version="5.18.1" />
                    </repository>
                   <!-- allow downloading and installing an Perl package from cpan.org-->
                   <package>http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz</package>
                   <package>http://www.psort.org/download/bio-tools-psort-all.3.0.3.tar.gz</package>
                </action>
            </actions>
        </install>
        <readme>
            http://www.psort.org/downloads/index.html
        </readme>
    </package>
</tool_dependency>