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1 <tool id="phytab_clearcut" name="phytab clearcut">
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2 <description>clearcut: Generate Neighbor Joining phylogeny. Input can be fasta or phytab format.</description>
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3 <requirements>
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4 <requirement type="package">clearcut</requirement>
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5 </requirements>
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6 <command interpreter="python">
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7 phytab_clearcut.py -i $data -t $datatype > $clearcut_stdout 2>&1
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8 </command>
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9 <inputs>
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10 <param format="txt" name="data" type="data" label="Sequence data" help="This should be sequence data in phytab or fasta"/>
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11 <param name="datatype" type="select" format="text">
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12 <label>Type of data for all partitions</label>
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13 <option value="P">Protein</option>
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14 <option value="D">DNA</option>
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15 </param>
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16 </inputs>
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17 <outputs>
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18 <data format="txt" name="clearcut_stdout" label="${tool.name} on ${on_string}: stdout" />
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19 <data format="tabular" name="clearcut_results" label="${tool.name} on ${on_string}: results" from_work_dir="data/results.data" />
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20 </outputs>
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21 <tests>
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22 </tests>
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23 <help>
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24 </help>
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25 </tool>
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