Mercurial > repos > chrisb > gap_all_glycan_tools
comparison 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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| -1:000000000000 | 0:89592faa2875 |
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| 1 <tool id="glytools_format_detector" name="GAP detect format" version="0.3"> | |
| 2 <description>Detects glycan file format</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="1.0">python_for_glycan_tools</requirement> | |
| 5 </requirements> | |
| 6 <command interpreter="python"><![CDATA[glycan_sniff.py -i $input $format ]]></command> | |
| 7 <inputs> | |
| 8 <param format="kcf,glycoct,glycoct_xml,linucs,linearcode,iupac,wurcs,glydeii,txt" name="input" type="data" label="glycan source file"/> | |
| 9 <param name="format" type="select" label="From"> | |
| 10 <option value="" selected="true"> no format specified (default)</option> | |
| 11 <option value="-f kcf" selected="false"> KCF </option> | |
| 12 <option value="-f glycoct" selected="false"> Glycoct </option> | |
| 13 <option value="-f glycoct_xml" selected="false"> Glycoct XML</option> | |
| 14 <option value="-f linucs" selected="false"> linucs </option> | |
| 15 <option value="-f linearcode" selected="false"> LinearCode </option> | |
| 16 <option value="-f iupac" selected="false"> IUPAC </option> | |
| 17 <option value="-f wurcs" selected="false"> WURCS </option> | |
| 18 <option value="-f glydeii" selected="false"> Glydeii </option> | |
| 19 </param> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data format="txt" name="output" label="Format of $input.name"/> | |
| 23 </outputs> | |
| 24 <citations> | |
| 25 <!-- --> | |
| 26 <citation type="doi">10.1089/omi.2009.0129</citation> | |
| 27 </citations> | |
| 28 | |
| 29 | |
| 30 <help> <![CDATA[ | |
| 31 .. class:: infomark | |
| 32 | |
| 33 **What this tool does** | |
| 34 | |
| 35 The tool can be used to guess the format and return the result as text. (returns format) | |
| 36 Given a format, the tool can be used to confirm whether a sequence is in the given format. (returns True/False) | |
| 37 | |
| 38 .. class:: infomark | |
| 39 | |
| 40 **Input** | |
| 41 | |
| 42 Any glycan. | |
| 43 | |
| 44 ]]> | |
| 45 </help> | |
| 46 | |
| 47 </tool> |