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1 <?xml version="1.0" encoding="UTF-8"?>
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2 <tool id="elastic_bowtie2" name="elastic bowtie2" version="1.0.0">
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3 <macros>
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4 <import>elastic_tool_wrappers_macros.xml</import>
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5 </macros>
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6 <description/>
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7 <requirements>
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8 <expand macro="rmarkdown_requirements"/>
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9 </requirements>
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10 <expand macro="stdio"/>
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11 <expand macro="shell_command"/>
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12 <inputs>
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13 <expand macro="tool_name"/>
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14 <expand macro="option_argument_single_dataset"/>
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15 <expand macro="option_argument_multiple_datasets"/>
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16 <expand macro="option_argument_path_relative_to_a_tool"/>
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17 <expand macro="option_argument_path_relative_to_this_tool"/>
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18 <expand macro="option_argument_string_float_integer"/>
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19 </inputs>
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20 <outputs>
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21 <expand macro="output_set"/>
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22 <citation type="bibtex"><![CDATA[
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23 @article{langmead2012fast,
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24 title={Fast gapped-read alignment with Bowtie 2},
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25 author={Langmead, Ben and Salzberg, Steven L},
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26 journal={Nature methods},
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27 volume={9},
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28 number={4},
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29 pages={357},
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30 year={2012},
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31 publisher={Nature Publishing Group}
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32 }
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33 ]]></citation>
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34 </outputs>
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35 <citations>
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36 <expand macro="citations"/>
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37 </citations>
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38 </tool>
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