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1 <tool id="glytools_format_detector" name="GAP detect format" version="0.3">
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2 <description>Detects glycan file format</description>
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3 <requirements>
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4 <requirement type="package" version="1.0">python_for_glycan_tools</requirement>
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5 </requirements>
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6 <command interpreter="python"><![CDATA[glycan_sniff.py -i $input $format ]]></command>
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7 <inputs>
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8 <param format="kcf,glycoct,glycoct_xml,linucs,linearcode,iupac,wurcs,glydeii,txt" name="input" type="data" label="glycan source file"/>
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9 <param name="format" type="select" label="From">
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10 <option value="" selected="true"> no format specified (default)</option>
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11 <option value="-f kcf" selected="false"> KCF </option>
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12 <option value="-f glycoct" selected="false"> Glycoct </option>
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13 <option value="-f glycoct_xml" selected="false"> Glycoct XML</option>
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14 <option value="-f linucs" selected="false"> linucs </option>
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15 <option value="-f linearcode" selected="false"> LinearCode </option>
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16 <option value="-f iupac" selected="false"> IUPAC </option>
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17 <option value="-f wurcs" selected="false"> WURCS </option>
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18 <option value="-f glydeii" selected="false"> Glydeii </option>
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19 </param>
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20 </inputs>
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21 <outputs>
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22 <data format="txt" name="output" label="Format of $input.name"/>
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23 </outputs>
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24 <citations>
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25 <!-- -->
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26 <citation type="doi">10.1089/omi.2009.0129</citation>
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27 </citations>
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28
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29
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30 <help> <![CDATA[
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31 .. class:: infomark
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32
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33 **What this tool does**
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34
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35 The tool can be used to guess the format and return the result as text. (returns format)
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36 Given a format, the tool can be used to confirm whether a sequence is in the given format. (returns True/False)
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37
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38 .. class:: infomark
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39
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40 **Input**
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41
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42 Any glycan.
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43
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44 ]]>
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45 </help>
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46
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47 </tool>
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