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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="samtools" version="0.1.19">
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4 <repository changeset_revision="923adc89c666" name="package_samtools_0_1_19" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
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5 </package>
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6 <package name="MIRA" version="4.0">
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7 <install version="1.0">
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8 <actions_group>
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9 <!-- Download the binaries for MIRA compatible with 64-bit OSX. -->
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10 <actions architecture="x86_64" os="darwin">
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11 <action type="download_by_url">http://downloads.sourceforge.net/project/mira-assembler/MIRA/stable/mira_4.0.2_darwin13.1.0_x86_64_static.tar.bz2</action>
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12 <action type="move_directory_files">
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13 <source_directory>bin</source_directory>
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14 <destination_directory>$INSTALL_DIR</destination_directory>
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15 </action>
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16 </actions>
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17 <!-- Download the binaries for MIRA compatible with 64-bit Linux. -->
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18 <actions architecture="x86_64" os="linux">
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19 <action type="download_by_url">http://downloads.sourceforge.net/project/mira-assembler/MIRA/stable/mira_4.0.2_linux-gnu_x86_64_static.tar.bz2</action>
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20 <action type="move_directory_files">
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21 <source_directory>bin</source_directory>
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22 <destination_directory>$INSTALL_DIR</destination_directory>
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23 </action>
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24 </actions>
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25 <!-- This actions tag is only processed if none of the above tags resulted in a successful installation. -->
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26 <actions>
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27 <action type="shell_command">echo "ERROR: Automated installation on your operating system and CPU architecture combination is not yet supported."</action>
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28 <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action>
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29 <action type="shell_command">uname</action>
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30 <action type="shell_command">arch</action>
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31 <action type="shell_command">echo "If pre-compiled MIRA binaries are now available for this, please report this"</action>
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32 <action type="shell_command">echo "via https://github.com/peterjc/pico_galaxyt/issues - thank you!"</action>
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33 <action type="shell_command">false</action>
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34 <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install -->
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35 </actions>
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36 <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
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37 <action type="set_environment">
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38 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
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39 </action>
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40 <action type="set_environment">
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41 <environment_variable action="set_to" name="MIRA4">$INSTALL_DIR</environment_variable>
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42 </action>
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43 </actions_group>
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44 </install>
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45 <readme>
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46 Downloads MIRA v4.0.2 from Sourceforge, requesting Bastien's precompiled binaries
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47 for 64 bit (x86_64) Linux or Mac OS X. Other platforms where compilation from
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48 source would be required (e.g. 32 bit Linux) are not supported by this automated
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49 installation script.
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50
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51 http://chevreux.org/projects_mira.html
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52 http://sourceforge.net/projects/mira-assembler/
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53 </readme>
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54 </package>
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55 </tool_dependency>
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