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1 <tool id="EMBOSS: wordcount109" name="wordcount" version="5.0.0">
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2 <description>Counts words of a specified size in a DNA sequence</description>
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3 <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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4 <command>wordcount -sequence $input1 -outfile $out_file1 -wordsize "$wordsize" -auto</command>
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5 <inputs>
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6 <param format="fasta" name="input1" type="data">
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7 <label>Sequence</label>
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8 </param>
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9 <param name="wordsize" size="5" type="text" value="4">
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10 <label>Word size</label>
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11 </param>
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12 </inputs>
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13 <outputs>
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14 <data format="wordcount" name="out_file1" />
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15 </outputs>
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16 <tests>
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17 <test>
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18 <param name="input1" value="2.fasta"/>
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19 <param name="wordsize" value="4"/>
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20 <output name="out_file1" file="emboss_wordcount_out.wordcount"/>
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21 </test>
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22 </tests>
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23 <help>
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24
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25 .. class:: warningmark
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26
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27 The input dataset needs to be sequences.
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28
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29 -----
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30
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31 You can view the original documentation here_.
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32
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33 .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/wordcount.html
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34 </help>
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35 </tool>
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