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annotate tool_dependencies.xml @ 1:488075d701fe draft

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Download MIRA 4.0.2 from Galaxy cache and verify checksums
author peterjc
date Wed, 10 Aug 2016 11:28:57 -0400
parents 8564aa1dbbf5
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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="MIRA" version="4.0.2">
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4 <install version="1.0">
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5 <actions_group>
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6 <!-- Download the binaries for MIRA compatible with 64-bit OSX. -->
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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7 <actions architecture="x86_64" os="darwin">
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488075d701fe Download MIRA 4.0.2 from Galaxy cache and verify checksums
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8 <action type="download_by_url" sha256sum="3cdfba4be7bde1a97b15259b9fd3216c4369d906ea20f5f360f30dc0d83e7b8e">https://depot.galaxyproject.org/software/mira/mira_4.0.2_darwin_x64.tar.bz2</action>
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8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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9 <action type="move_directory_files">
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10 <source_directory>bin</source_directory>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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11 <destination_directory>$INSTALL_DIR</destination_directory>
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12 </action>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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13 </actions>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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14 <!-- Download the binaries for MIRA compatible with 64-bit Linux. -->
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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15 <actions architecture="x86_64" os="linux">
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488075d701fe Download MIRA 4.0.2 from Galaxy cache and verify checksums
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16 <action type="download_by_url" sha256sum="d3c74a6b402192e01d10adb8dbdc3450d4033fa0e7662ce5ce5de4f8c1967813">https://depot.galaxyproject.org/software/mira/mira_4.0.2_linux_x64.tar.bz2</action>
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8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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17 <action type="move_directory_files">
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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18 <source_directory>bin</source_directory>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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19 <destination_directory>$INSTALL_DIR</destination_directory>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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20 </action>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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21 </actions>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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22 <!-- This actions tag is only processed if none of the above tags resulted in a successful installation. -->
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23 <actions>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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24 <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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25 <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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26 <action type="shell_command">uname</action>
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27 <action type="shell_command">arch</action>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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28 <action type="shell_command">echo "If pre-compiled MIRA binaries are now available for this, please report this"</action>
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488075d701fe Download MIRA 4.0.2 from Galaxy cache and verify checksums
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29 <action type="shell_command">echo "via https://github.com/peterjc/galaxy_mira/issues - thank you!"</action>
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30 <action type="shell_command">false</action>
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31 <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install -->
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32 </actions>
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33 <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
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34 <action type="set_environment">
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35 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
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36 </action>
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37 <action type="set_environment">
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38 <environment_variable action="set_to" name="MIRA4">$INSTALL_DIR</environment_variable>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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39 </action>
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40 </actions_group>
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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41 </install>
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42 <readme>
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43 Downloads MIRA v4.0.2 from Sourceforge, requesting Bastien's precompiled binaries
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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44 for 64 bit (x86_64) Linux or Mac OS X. Other platforms where compilation from
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45 source would be required (e.g. 32 bit Linux) are not supported by this automated
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46 installation script.
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47
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48 http://chevreux.org/projects_mira.html
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49 http://sourceforge.net/projects/mira-assembler/
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50
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51 The environment variable ``$MIRA4`` will point to the folder containing the binaries,
8564aa1dbbf5 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_4_0_2 commit ea24615d4adfe1625a505d71da82eebfe5f6abfc
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52 which is also pre-pended to the``$PATH`` variable.
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53 </readme>
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54 </package>
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55 </tool_dependency>