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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cgview commit 9c3f45e4ad61781ac0c3bf61e62d7d94ccb1d4ed-dirty"
author dfornika
date Thu, 12 Dec 2019 19:31:55 +0000
parents 1393e1b26f0b
children
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d7e81eba876f planemo upload for repository https://github.com/dfornika/galaxy/tree/master/tools/cgview commit c74272bb72948dfdff23e78a2d1e4955ac05d258-dirty
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1 <tool id="cgview" name="cgview" version="1.0+galaxy0">
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2 <description>Circular Genome Viewer</description>
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3 <requirements>
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4 <requirement type="package" version="1.0">cgview</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code">
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7 <![CDATA[
7
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8 ln -s '${input}' input.xml &&
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9 cgview
7
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10 -i 'input.xml'
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11 -c '${center_zoom_on_base}'
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12 -A '${label_font_size}'
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13 -z '${zoom_amount}'
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14 -s 'outdir'
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15 ]]>
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16 </command>
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17 <inputs>
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18 <param name="input" type="data" format="xml" label="Input" help=""/>
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19 <param name="center_zoom_on_base" type="integer" min="" value="" max="" label="Base to center zoomed map on" help="" />
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20 <param name="label_font_size" type="integer" min="2" value="12" max="96" label="Label font size" help=""/>
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21 <param name="zoom_amount" type="integer" min="1" value="1" max="100" label="Zoom amount" help=""/>
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22 </inputs>
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23 <outputs>
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24 <data name="output" format="png">
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25 <discover_datasets/>
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26 </data>
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27 </outputs>
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28 <tests>
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29 </tests>
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30 <help>
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31 </help>
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32 <citations>
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33 <citation type="bibtex">
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34 @article{
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35 stothard2004circular,
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36 title={Circular genome visualization and exploration using CGView},
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37 author={Stothard, Paul and Wishart, David S},
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38 journal={Bioinformatics},
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39 volume={21},
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40 number={4},
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41 pages={537--539},
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42 year={2004},
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43 publisher={Oxford University Press}
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44 }
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45 </citation>
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46 </citations>
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47 </tool>