Mercurial > repos > iuc > package_stringtie_1_0_3

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
author iuc
date Wed, 13 May 2015 22:38:38 -0400
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a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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1 <?xml version="1.0"?>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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2 <tool_dependency>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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3 <package name="stringtie" version="1.0.3">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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4 <install version="1.0">
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5 <actions_group>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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6 <actions architecture="x86_64" os="linux">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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7 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.3.Linux_x86_64.tar.gz</action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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8 <action type="move_file">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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9 <source>stringtie</source>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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10 <destination>$INSTALL_DIR/bin</destination>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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11 </action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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12 </actions>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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13 <actions architecture="x86_64" os="darwin">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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14 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.3.OSX_x86_64.tar.gz</action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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15 <action type="move_file">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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16 <source>stringtie</source>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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17 <destination>$INSTALL_DIR/bin</destination>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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18 </action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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19 </actions>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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20 <actions>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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21 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.3.tar.gz</action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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22 <action type="shell_command">make release</action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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23 <action type="move_file">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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24 <source>stringtie</source>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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25 <destination>$INSTALL_DIR/bin</destination>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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26 </action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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27 </actions>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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28 <action type="set_environment">
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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29 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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30 </action>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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31 </actions_group>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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32 </install>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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33 <readme>StringTie is a fast and highly efficient assembler of RNA-Seq
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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34 alignments into potential transcripts. It is primarily a genome-guided
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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35 transcriptome assembler, although it can borrow algorithmic techniques
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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36 from de novo genome assembly to help with transcript assembly. Its input
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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37 can include not only the spliced read alignments used by reference-based
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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38 assemblers, but also longer contigs that were assembled de novo from
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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39 unambiguous, non-branching parts of a transcript.</readme>
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40 </package>
a98e504eb982 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stringtie_1_0_3 commit 3c6bac9c9b0d7f6d84a0db786d3f9940322a6b72
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41 </tool_dependency>