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1 <tool id="substitutions1" name="Fetch substitutions " version="1.0.0">
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2 <description> from pairwise alignments</description>
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3 <command interpreter="python">
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4 substitutions.py
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5 $input
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6 $out_file1
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7 </command>
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8 <inputs>
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9 <param format="maf" name="input" type="data" label="Select pair-wise alignment data"/>
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10 </inputs>
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11 <outputs>
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12 <data format="tabular" name="out_file1" metadata_source="input"/>
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13 </outputs>
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14
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15 <tests>
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16 <test>
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17 <param name="input" value="Interval2Maf_pairwise_out.maf"/>
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18 <output name="out_file1" file="subs.out"/>
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19 </test>
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20 </tests>
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21 <help>
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22
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23 .. class:: infomark
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24
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25 **What it does**
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26
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27 This tool takes a pairwise MAF file as input and fetches substitutions per alignment block.
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28
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29 -----
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30
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31 .. class:: warningmark
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32
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33 **Note**
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34
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35 Any block/s not containing exactly two sequences, will be omitted.
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36
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37 </help>
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38 </tool> |
