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1 <tool id="phylogeny_converter" name="phylogeny_converter">
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2 <description></description>
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3 <command interpreter="python">
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4 converter.py $input $output $filetype.inouttype $filetype.type
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5 </command>
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6 <inputs>
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7 <conditional name="filetype">
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8 <param name="type" type="select" label="is this a multi-sequence file?">
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9 <option value="multi">Multi sequence</option>
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10 <option value="single">Single sequence</option>
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11 </param>
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12 <when value="single">
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13 <param name="input" type="data" label="Original sigle sequence file"/>
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14 <param name="inouttype" type="select" label="conversion">
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15 <option value="f-g">Fasta to GenBank</option>
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16 <option value="g-f">GenBank to Fasta</option>
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17 </param>
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18 </when>
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19 <when value="multi">
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20 <param name="input" type="data" label="Original multi sequence file" help="Please note that Phylip and nexus limit sequence names to a maximum of 10 characters"/>
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21 <param name="inouttype" type="select" label="conversion">
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22 <option value="f-g">Fasta to GenBank</option>
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23 <option value="g-f">GenBank to Fasta</option>
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24 <option value="f-p">Fasta to Phylip</option>
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25 <option value="f-n">Fasta to Nexus</option>
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26 <option value="p-f">Phylip to Fasta</option>
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27 <option value="p-n">Phylip to Nexus</option>
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28 <option value="n-p">Nexus to Phylip</option>
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29 <option value="n-f">Nexus to Fasta</option>
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30 </param>
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31 </when>
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32 </conditional>
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33 </inputs>
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34 <outputs>
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35 <data name="output" format="tabular"/>
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36 </outputs>
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37 <help>
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38
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39 What it does
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40
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41 This tool converts different file formats to allow the data-exchange from different philogeny tools.
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42
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43 Developed by
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44 Iolanda Mangone
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45
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46 </help>
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47 </tool>
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