Mercurial > repos > peterjc > package_mira_3_4_1_1

annotate tool_dependencies.xml @ 2:5424ac61b2d4 draft

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planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 5d28fc7d9aae250eacdb9e645f5ca05ea8f15d6f
author peterjc
date Thu, 15 Oct 2015 13:12:01 -0400
parents 9a2c38f3a2f0
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af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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1 <?xml version="1.0"?>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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2 <tool_dependency>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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3 <package name="MIRA" version="3.4.1.1">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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4 <install version="1.0">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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5 <actions_group>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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6 <!-- Download the binaries for MIRA compatible with 64-bit Linux. -->
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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7 <actions architecture="x86_64" os="linux">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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8 <action type="download_by_url">http://downloads.sourceforge.net/project/mira-assembler/MIRA/Older%20releases/V3.4.0/mira_3.4.1.1_prod_linux-gnu_x86_64_static.tar.bz2</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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9 <action type="move_directory_files">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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10 <source_directory>bin</source_directory>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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11 <destination_directory>$INSTALL_DIR</destination_directory>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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12 </action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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13 </actions>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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14 <!-- This actions tag is only processed if none of the above tags resulted in a successful installation. -->
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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15 <actions>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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16 <action type="shell_command">echo "ERROR: Automated installation on your operating system and CPU architecture combination is not yet supported."</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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17 <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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18 <action type="shell_command">uname</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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19 <action type="shell_command">arch</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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20 <action type="shell_command">echo "If pre-compiled MIRA binaries are now available for this, please report this"</action>
1
9a2c38f3a2f0 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 4fbb738ddbc87132ca11dfaaaa38aa922ac87115-dirty
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21 <action type="shell_command">echo "via https://github.com/peterjc/galaxy_mira/issues - thank you!"</action>
0
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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22 <action type="shell_command">false</action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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23 <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install -->
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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24 </actions>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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25 <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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26 <action type="set_environment">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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27 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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28 </action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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29 <action type="set_environment">
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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30 <environment_variable action="set_to" name="MIRA3">$INSTALL_DIR</environment_variable>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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31 </action>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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32 </actions_group>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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33 </install>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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34 <readme>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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35 Downloads MIRA v3.4.1.1 from Sourceforge, requesting Bastien's precompiled binaries
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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36 for 64bit Linux (x86_64). He also has binaries for 32bit Linux (686 only), which we
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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37 could use once the Galaxy installation framework allow that kind of flexibility.
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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38
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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39 http://chevreux.org/projects_mira.html
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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40 http://sourceforge.net/projects/mira-assembler/
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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41
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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42 The environment variable ``$MIRA3`` will point to the folder containing the binaries,
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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43 which is also pre-pended to the ``$PATH`` variable.
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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44 </readme>
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45 </package>
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46 </tool_dependency>
af39588c4839 planemo upload for repository https://github.com/peterjc/pico_galaxy/tree/master/packages/package_mira_3_4_1_1 commit 33c0f610472a3e19d4b85afb052c57f3f6da397f
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47