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comparison query.xml @ 2:a4abcc1e7459 draft

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Uploaded 20180404
author fabio
date Tue, 03 Apr 2018 20:39:28 -0400
parents 315246810bfa
children 69a3505ac594
comparison
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1:9a00e3b8c3c0 2:a4abcc1e7459
33 <param name="inputtype" type="select" label="Input mode" help="Select a mode based on how do you want to specify the input"> 33 <param name="inputtype" type="select" label="Input mode" help="Select a mode based on how do you want to specify the input">
34 <option value="0" selected="true">By file</option> 34 <option value="0" selected="true">By file</option>
35 <option value="1">By manually inserted text</option> 35 <option value="1">By manually inserted text</option>
36 </param> 36 </param>
37 <when value="0"> 37 <when value="0">
38 <param format="tabular" name="txtfiles" type="data" label="Select files" multiple="true" optional="false" help="Select one or more tabular files containing (ID, TRANSCRIPT) couples for each line. The content of these files will be merged and the result will represent a query to the AllSome Sequence Bloom Tree Search Engine that will return a collection containing a file for each ID. The content of these files as result of the tool will be a list of accession numbers." /> 38 <param format="tabular" name="txtfiles" type="data" label="Select files" multiple="true" optional="false" help="Select one or more tabular files containing (ID, TRANSCRIPT) couples for each line. The content of these files will be merged and the result will represent a query to the Sequence Bloom Tree that will return a collection containing a file for each ID. The content of these files as result of the tool will be a list of accession numbers." />
39 </when> 39 </when>
40 <when value="1"> 40 <when value="1">
41 <param name="sequences" type="text" area="True" size="5x25" label="Manually insert sequences" optional="false" help="Insert a list of (ID, TRANSCRIPT) couples in a tab delimited format, one for each line. The content of this text box will represent a query to the AllSome Sequence Bloom Tree Search Engine that will return a collection containing a file for each ID. The content of these files as result of the tool will be a list of accession numbers." /> 41 <param name="sequences" type="text" area="True" size="5x25" label="Manually insert sequences" optional="false" help="Insert a list of (ID, TRANSCRIPT) couples in a tab delimited format, one for each line. The content of this text box will represent a query to the Sequence Bloom Tree that will return a collection containing a file for each ID. The content of these files as result of the tool will be a list of accession numbers." />
42 </when> 42 </when>
43 </conditional> 43 </conditional>
44 <param name="sthreshold" size="3" type="float" value="0.7" min="0.0" max="1.0" label="Search threshold" help="This threshold controls the specificity. Lower values will produce more hits to the query. Higher values are more stringent and will produce fewer hits." /> 44 <param name="sthreshold" size="3" type="float" value="0.7" min="0.0" max="1.0" label="Search threshold" help="This threshold controls the specificity. Lower values will produce more hits to the query. Higher values are more stringent and will produce fewer hits." />
45 </inputs> 45 </inputs>
46 <outputs> 46 <outputs>
47 <collection name="output_collect" type="list" label="AllSome Sequence Bloom Tree Search Collection"> 47 <collection name="output_collect" type="list" label="BloomTree Manager - Query result collection">
48 <discover_datasets pattern="(?P&lt;identifier_0&gt;[^_]+)_(?P&lt;ext&gt;[^_]+)" directory="collection_content" ext="auto" /> 48 <discover_datasets pattern="(?P&lt;identifier_0&gt;[^_]+)_(?P&lt;ext&gt;[^_]+)" directory="collection_content" ext="auto" />
49 </collection> 49 </collection>
50 </outputs> 50 </outputs>
51 51
52 <help><![CDATA[ 52 <help><![CDATA[