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1 <tool id="convert_bc_to_binary_RY.py" name="Create binary barcodes" version="0.1.0">
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2 <description>from regular barcodes.</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6 <expand macro="requirements" />
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7 <expand macro="stdio" />
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8 <version_command>python convert_bc_to_binary_RY.py --version</version_command>
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9 <command interpreter="python"><![CDATA[
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10 convert_bc_to_binary_RY.py
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11 #if $positional_1 and $positional_1 is not None:
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12 $positional_1
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13 #end if
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14 > $default]]></command>
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15 <inputs>
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16 <param label="Fastq file to convert." name="positional_1" type="data" format="fastq"/>
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17 </inputs>
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18 <outputs>
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19 <data hidden="false" name="default" format="fastq"/>
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20 </outputs>
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21 <tests>
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22 <test>
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23 <param name="positional_1" value="extracted_bcs.fastq"/>
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24 <output name="default" file="converted_bcs.fastq"/>
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25 </test>
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26 </tests>
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27 <help><![CDATA[
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28
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29 **What it does**
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30
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31 This tool converts standard nucleotides to IUPAC nucleotide codes used for binary barcodes.
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32 A and G are converted to nucleotide code R. T, U and C are converted to Y.
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33
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34 **Input**
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35
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36 The input for this tool is a fastq file.
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37
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38 **Output**
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39
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40 This tool produces a single fastq file containing the converted barcodes.
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41
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42 ** References **
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43 ]]></help>
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44 <expand macro="citations" />
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45 </tool>
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