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1 <tool id="sixframe_translate" name="Generate 6-frame translation" version="1.0.0">
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2 <requirements>
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3 <requirement type="package" version="1.3">protk</requirement>
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4 </requirements>
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5
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6 <description>Translates DNA/RNA to protein</description>
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7
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8 <command>
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9 sixframe.rb $fasta_file -o $output $strip_header $coords
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10 </command>
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11
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12
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13
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14
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15 <stdio>
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16 <exit_code range="1:" level="fatal" description="Failure" />
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17 </stdio>
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18
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19 <inputs>
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20 <param name="fasta_file" type="data" format="fasta" label="Uploaded FASTA file" />
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21 <param name="strip_header" type="boolean" label="Strip header info" help="" truevalue="--strip-header" falsevalue="" />
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22 <param name="coords" type="boolean" label="Write genomic coordinates" help="" truevalue="--coords" falsevalue="" />
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23 </inputs>
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24
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25 <outputs>
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26 <data format="fasta" name="output" />
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27 </outputs>
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28
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29
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30 <help>
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31
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32 **What it does**
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33
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34 Generates 6 frame translations suitable for proteogenomics workflows
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35
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36 ----
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37
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38 **References**
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39
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40
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41 </help>
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42
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43 </tool>
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