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57 lines
2.2 KiB
XML
57 lines
2.2 KiB
XML
<tool id="EMBOSS: textsearch98" name="textsearch" version="4.0.0">
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<description>Search sequence documentation. Slow, use SRS and Entrez!</description>
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<command>textsearch -sequence $input1 -outfile $out_file1 -pattern "$pattern" -casesensitive -heading $heading -usa $usa -accession $accession -name $search_name -description $description -html
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$html_out1 -auto</command>
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<inputs>
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<param format="data" name="input1" type="data">
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<label>Sequence</label>
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</param>
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<param name="pattern" size="50" type="text" value="">
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<label>Pattern to search for</label>
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</param>
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<param name="casesensitive" type="select">
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<label>Do a case-sensitive search</label>
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<option value="no">No</option>
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<option value="yes">Yes</option>
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</param>
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<param name="heading" type="select">
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<label>Display column headings</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="usa" type="select">
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<label>Display the USA of the sequence</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="accession" type="select">
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<label>Display accession column</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="search_name" type="select">
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<label>Display name column</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="description" type="select">
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<label>Display description column</label>
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<option value="yes">Yes</option>
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<option value="no">No</option>
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</param>
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<param name="html_out1" type="select">
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<label>Format output as an HTML table</label>
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<option value="no">No</option>
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<option value="yes">Yes</option>
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</param>
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</inputs>
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<outputs>
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<data format="txt" name="out_file1" />
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</outputs>
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<code file="emboss_format_corrector.py" />
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<help>
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You can view the original documentation here_.
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.. _here: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/textsearch.html
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</help>
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</tool> |