[2] | 1 | <tool id="EMBOSS: polydot77" name="polydot" version="5.0.0">
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| 2 | <!-- produces png file, not added functional tests --> |
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| 3 | <description>Displays all-against-all dotplots of a set of sequences</description>
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| 4 | <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements>
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| 5 | <command interpreter="perl">emboss_single_outputfile_wrapper.pl polydot -sequence $input1 -graph png -goutfile $output2 -outfeat $output1 -wordsize $wordsize -boxit $boxit -dumpfeat yes -gap
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| 6 | $gap -auto</command>
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| 7 | <inputs>
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| 8 | <param format="fasta" name="input1" type="data">
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| 9 | <label>Sequence</label>
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| 10 | </param>
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| 11 | <param name="wordsize" size="10" type="text" value="6">
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| 12 | <label>Word size</label>
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| 13 | </param>
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| 14 | <param name="boxit" type="select">
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| 15 | <label>Draw a box around each dotplot</label>
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| 16 | <option value="yes">Yes</option>
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| 17 | <option value="no">No</option>
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| 18 | </param>
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| 19 | <param name="gap" size="10" type="text" value="10">
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| 20 | <label>Size of gap</label>
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| 21 | </param>
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| 22 | </inputs>
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| 23 | <outputs>
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| 24 | <data format="polydot" name="output1" />
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| 25 | <data format="png" name="output2" />
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| 26 | </outputs> |
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| 27 | <!-- <tests> |
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| 28 | <test> |
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| 29 | <param name="input1" value="2.fasta"/> |
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| 30 | <param name="wordsize" value="6"/> |
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| 31 | <param name="boxit" value="yes"/> |
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| 32 | <param name="gap" value="10"/> |
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| 33 | <output name="output1" file="emboss_polydot_out.png"/> |
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| 34 | </test> |
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| 35 | </tests>-->
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| 36 | <help> |
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| 37 | |
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| 38 | .. class:: warningmark |
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| 39 | |
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| 40 | The input dataset needs to be sequences. |
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| 41 | |
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| 42 | ----- |
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| 43 | |
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| 44 | You can view the original documentation here_. |
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| 45 | |
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| 46 | .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/polydot.html |
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| 47 | </help> |
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| 48 | </tool> |
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