Mercurial > repos > chrisb > gap_all_glycan_tools
view convert_detect_formats/rings_convert_format/glycan_convert.xml @ 0:89592faa2875 draft
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author | chrisb |
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date | Wed, 23 Mar 2016 14:35:56 -0400 |
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<tool id="glytools_converter_soap" name="GAP convert format (SOAP)" version="0.3"> <description> Convert between multiple glycan formats using the RINGS SOAP service</description> <requirements> <requirement type="package" version="1.0">python_for_glycan_tools</requirement> </requirements> <command interpreter="python"><![CDATA[glycan_convert.py -i $input -f $changeformat -o $output]]></command> <inputs> <param format="kcf,glycoct_xml,linucs,linearcode,iupac,glydeii,txt" name="input" type="data" label="Source file"/> <param name="changeformat" type="select" label="Format to convert to"> <option value="KCF" selected="true"> KCF </option> <option value="LinearCode" selected="false"> LinearCode </option> <option value="LINUCS" selected="false"> LINUCS </option> <option value="GlycoCT" selected="false"> Glycoct </option> <option value="IUPAC" selected="false"> IUPAC </option> </param> </inputs> <outputs> <data format="input" name="output" metadata_source="input"> <change_format> <when input="changeformat" value="KCF" format="kcf"/> <when input="changeformat" value="GlycoCT" format="glycoct"/> <when input="changeformat" value="LinearCode" format="linearcode"/> <when input="changeformat" value="IUPAC" format="iupac"/> <when input="changeformat" value="LINUCS" format="linucs"/> </change_format> </data> </outputs> <citations> <!-- --> <citation type="doi">10.1089/omi.2009.0129</citation> </citations> <help> <![CDATA[ .. class:: infomark **What this tool does** This tool converts between glycan formats using the RINGS SOAP convert service. .. class:: infomark **Input** 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) .. class:: infomark **Output** Can only convert to KCF, GlycoCT (xml), LinearCode, LINUCS, IUPAC (last checked 25/02/2015). ]]> </help> </tool>