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1 <tool id="glytools_converter_soap" name="GAP convert format (SOAP)" version="0.3">
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2 <description> Convert between multiple glycan formats using the RINGS SOAP service</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_convert.py -i $input -f $changeformat -o $output]]></command>
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7 <inputs>
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8 <param format="kcf,glycoct_xml,linucs,linearcode,iupac,glydeii,txt" name="input" type="data" label="Source file"/>
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9 <param name="changeformat" type="select" label="Format to convert to">
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10 <option value="KCF" selected="true"> KCF </option>
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11 <option value="LinearCode" selected="false"> LinearCode </option>
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12 <option value="LINUCS" selected="false"> LINUCS </option>
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13 <option value="GlycoCT" selected="false"> Glycoct </option>
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14 <option value="IUPAC" selected="false"> IUPAC </option>
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15 </param>
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16 </inputs>
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17 <outputs>
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18
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19 <data format="input" name="output" metadata_source="input">
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20 <change_format>
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21 <when input="changeformat" value="KCF" format="kcf"/>
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22 <when input="changeformat" value="GlycoCT" format="glycoct"/>
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23 <when input="changeformat" value="LinearCode" format="linearcode"/>
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24 <when input="changeformat" value="IUPAC" format="iupac"/>
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25 <when input="changeformat" value="LINUCS" format="linucs"/>
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26 </change_format>
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27 </data>
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28 </outputs>
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29
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30 <citations>
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31 <!-- -->
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32 <citation type="doi">10.1089/omi.2009.0129</citation>
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33 </citations>
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34
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35 <help> <![CDATA[
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36 .. class:: infomark
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37
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38 **What this tool does**
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39
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40 This tool converts between glycan formats using the RINGS SOAP convert service.
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41
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42 .. class:: infomark
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43
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44 **Input**
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45
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46 Any glycan dataset *except* for GlycoCT{condensed}, WURCS, MDL Mol and LINUCS (LINUCS only converts to LINUCS with this tools and the other formats do not convert)
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47
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48
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49 .. class:: infomark
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50
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51 **Output**
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52
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53 Can only convert to KCF, GlycoCT (xml), LinearCode, LINUCS, IUPAC (last checked 25/02/2015).
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54
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55 ]]>
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56 </help>
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57
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58 </tool>
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