view tool_dependencies.xml @ 8:5d4078513d71 draft

Uploaded

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−<?xml version="1.0"?>
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−<tool_dependency>
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−    <package name="blast+" version="2.2.28">
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−        <repository changeset_revision="d794cb2b0f45" name="package_blast_plus_2_2_28" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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−    </package>
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−    <package name="hmmer " version="2.3.2">
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−        <repository changeset_revision="64510d86d77d" name="package_hmmer_2_3_2" owner="lionelguy" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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−    </package>
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−    <package name="hmmer" version="3.0">
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−        <repository changeset_revision="3bc37773c609" name="package_hmmer_3_0" owner="jjohnson" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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−    </package>
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−    <package name="muscle" version="3.8.31">
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−        <repository changeset_revision="ce304c51f69b" name="package_muscle_3_8_31" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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−    </package>
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−    <package name="biopython" version="1.62">
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−        <repository changeset_revision="ac9cc2992b69" name="package_biopython_1_62" owner="biopython" toolshed="http://testtoolshed.g2.bx.psu.edu" />
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−    </package>
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−    <package name="antismash_python_deps" version="2.0.2">
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−        <install version="1.0">
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−            <actions>
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−                <action type="setup_virtualenv">helperlibs==0.1.2
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−straight.plugin==1.4.0-post-1</action>
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−            </actions>
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−        </install>
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−        <readme>
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−            AntiSmash python dependencies (helperlibs and straight.plugin)
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−        </readme>
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−    </package>
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−    <package name="antismash" version="2.0.2">
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−        <install version="1.0">
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−           <actions_group>
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−                <!-- Download the binaries for MUSCLE compatible with 64-bit OSX. -->
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−                <actions architecture="x86_64" os="darwin">
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−                    <action type="download_by_url">https://bitbucket.org/antismash/antismash2/downloads/antiSMASH2.0.2_macosx.zip</action>
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−                    <action type="move_directory_files">
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−                        <source_directory>.</source_directory>
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−                        <destination_directory>$INSTALL_DIR</destination_directory>
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−                    </action>
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−                    <action type="chmod">
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−                        <file mode="750">$INSTALL_DIR/run_antismash.py</file>
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−                    </action>
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−                </actions>
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−                <!-- Download the binaries for MUSCLE compatible with 64-bit OSX. -->
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−                <actions architecture="i386" os="darwin">
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−                    <action type="download_by_url">https://bitbucket.org/antismash/antismash2/downloads/antiSMASH2.0.2_macosx.zip</action>
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−                    <action type="move_directory_files">
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−                        <source_directory>.</source_directory>
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−                        <destination_directory>$INSTALL_DIR</destination_directory>
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−                    </action>
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−                    <action type="chmod">
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−                        <file mode="750">$INSTALL_DIR/run_antismash.py</file>
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−                    </action>
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−                </actions>
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−                <!-- Download the binaries for AntiSmash compatible with 64-bit Linux. -->
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−                <actions architecture="x86_64" os="linux">
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−                    <action target_filename="antismash-2.0.2.tar.bz2" type="download_by_url">https://bitbucket.org/antismash/antismash2/downloads/antismash-2.0.2.x86_64.tar.bz2</action>
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−                    <action type="move_directory_files">
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−                        <source_directory>antismash-2.0.2/*</source_directory>
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−                        <destination_directory>$INSTALL_DIR</destination_directory>
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−                    </action>
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−                    <action type="chmod">
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−                        <file mode="750">$INSTALL_DIR/run_antismash.py</file>
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−                    </action>
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−                    <action type="download_by_url">https://bitbucket.org/antismash/antismash2/downloads/clusterblast.tar.gz</action>
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−                    <action type="move_directory_files">
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−                        <source_directory>.</source_directory>
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−                        <destination_directory>$INSTALL_DIR/antismash/generic_modules/clusterblast</destination_directory>
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−                    </action>
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−                </actions>
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−                <!-- Download the binaries for AntiSmash compatible with 32-bit Linux. -->
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−                <actions architecture="i386" os="linux">
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−                    <action type="download_by_url">https://bitbucket.org/antismash/antismash2/downloads/antismash-2.0.2.i686.tar.bz2</action>
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−                    <action type="move_directory_files">
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−                        <source_directory>.</source_directory>
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−                        <destination_directory>$INSTALL_DIR</destination_directory>
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−                    </action>
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−                    <action type="chmod">
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−                        <file mode="750">$INSTALL_DIR/run_antismash.py</file>
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−                    </action>
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−                </actions>
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−
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−                <actions>
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−
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−                </actions>
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−
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−                <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
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−                <action type="set_environment">
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−                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
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−                </action>
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−            </actions_group>
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−        </install>
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−        <readme>
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−            AntiSmash installation with all dependencies.
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−        </readme>
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−    </package>
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−</tool_dependency>