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1 <tool id="sfffile" name="Sff File" version="1.0.0">
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2 <description>Select reads to include or exclude from one or more input Sff files</description>
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3 <command>sfffile -$include_or_exclude $list_file -o $output
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4 #for $i in $inputs
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5 ${i.input}
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6 #end for
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7 </command>
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8 <inputs>
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9 <repeat name="inputs" title="Input Files">
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10 <param name="input" type="data" format="sff" label="Sff file"/>
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11 </repeat>
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12 <param name="list_file" type="data" format="text" label="List of read IDs"/>
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13 <param name="include_or_exclude" type="select" label="Include or exclude the named reads?">
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14 <option value='i' selected='true'>include</option>
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15 <option value='e'>exclude</option>
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16 </param>
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17 </inputs>
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18
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19 <outputs>
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20 <data name="output" format="sff"/>
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21 </outputs>
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22
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23 <help>
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24
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25 **What it does**
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26
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27 This tool creates an Sff file, either including or excluding named reads.
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28 </help>
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29 </tool>
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