Mercurial > repos > chrisb > gap_all_glycan_tools
diff convert_detect_formats/rings_detect_format/glycan_sniff.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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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/convert_detect_formats/rings_detect_format/glycan_sniff.xml Wed Mar 23 14:35:56 2016 -0400 @@ -0,0 +1,47 @@ +<tool id="glytools_format_detector" name="GAP detect format" version="0.3"> + <description>Detects glycan file format</description> + <requirements> + <requirement type="package" version="1.0">python_for_glycan_tools</requirement> + </requirements> + <command interpreter="python"><![CDATA[glycan_sniff.py -i $input $format ]]></command> + <inputs> + <param format="kcf,glycoct,glycoct_xml,linucs,linearcode,iupac,wurcs,glydeii,txt" name="input" type="data" label="glycan source file"/> + <param name="format" type="select" label="From"> + <option value="" selected="true"> no format specified (default)</option> + <option value="-f kcf" selected="false"> KCF </option> + <option value="-f glycoct" selected="false"> Glycoct </option> + <option value="-f glycoct_xml" selected="false"> Glycoct XML</option> + <option value="-f linucs" selected="false"> linucs </option> + <option value="-f linearcode" selected="false"> LinearCode </option> + <option value="-f iupac" selected="false"> IUPAC </option> + <option value="-f wurcs" selected="false"> WURCS </option> + <option value="-f glydeii" selected="false"> Glydeii </option> + </param> + </inputs> + <outputs> + <data format="txt" name="output" label="Format of $input.name"/> + </outputs> + <citations> + <!-- --> + <citation type="doi">10.1089/omi.2009.0129</citation> +</citations> + + + <help> <![CDATA[ +.. class:: infomark + +**What this tool does** + +The tool can be used to guess the format and return the result as text. (returns format) +Given a format, the tool can be used to confirm whether a sequence is in the given format. (returns True/False) + +.. class:: infomark + +**Input** + +Any glycan. + +]]> + </help> + +</tool>