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1 <?xml version="1.0"?>
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2 <tool_dependency>
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3 <package name="stringtie" version="1.0.1">
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4 <install version="1.0">
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5 <actions_group>
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6 <actions architecture="x86_64" os="linux">
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7 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.1.Linux_x86_64.tar.gz</action>
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8 <action type="move_file">
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9 <source>stringtie</source>
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10 <destination>$INSTALL_DIR/bin</destination>
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11 </action>
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12 </actions>
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13 <actions architecture="x86_64" os="darwin">
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14 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.1.OSX_x86_64.tar.gz</action>
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15 <action type="move_file">
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16 <source>stringtie</source>
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17 <destination>$INSTALL_DIR/bin</destination>
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18 </action>
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19 </actions>
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20 <actions>
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21 <action type="download_by_url">http://ccb.jhu.edu/software/stringtie/dl/stringtie-1.0.1.tar.gz</action>
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22 <action type="shell_command">make release</action>
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23 <action type="move_file">
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24 <source>stringtie</source>
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25 <destination>$INSTALL_DIR/bin</destination>
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26 </action>
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27 </actions>
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28 <action type="set_environment">
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29 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
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30 </action>
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31 </actions_group>
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32 </install>
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33 <readme>StringTie is a fast and highly efficient assembler of RNA-Seq
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34 alignments into potential transcripts. It is primarily a genome-guided
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35 transcriptome assembler, although it can borrow algorithmic techniques
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36 from de novo genome assembly to help with transcript assembly. Its input
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37 can include not only the spliced read alignments used by reference-based
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38 assemblers, but also longer contigs that were assembled de novo from
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39 unambiguous, non-branching parts of a transcript.</readme>
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40 </package>
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41 </tool_dependency>
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