Mercurial > repos > xuebing > sharplabtool
comparison tools/emboss_5/emboss_dotpath.xml @ 0:9071e359b9a3
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| author | xuebing |
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| date | Fri, 09 Mar 2012 19:37:19 -0500 |
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| -1:000000000000 | 0:9071e359b9a3 |
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| 1 <tool id="EMBOSS: dotpath25" name="dotpath" version="5.0.0"> | |
| 2 <description>Non-overlapping wordmatch dotplot of two sequences</description> | |
| 3 <requirements><requirement type="package" version="5.0.0">emboss</requirement></requirements> | |
| 4 <command interpreter="perl">emboss_single_outputfile_wrapper.pl dotpath -asequence $input1 -bsequence $input2 -goutfile $out_file1 -wordsize $wordsize -overlaps $overlaps -boxit $boxit -graph png | |
| 5 -auto</command> | |
| 6 <inputs> | |
| 7 <param format="data" name="input1" type="data"> | |
| 8 <label>Sequence 1</label> | |
| 9 </param> | |
| 10 <param format="data" name="input2" type="data"> | |
| 11 <label>Sequence 2</label> | |
| 12 </param> | |
| 13 <param name="wordsize" size="4" type="text" value="4"> | |
| 14 <label>Word size (Integer 2 or more)</label> | |
| 15 </param> | |
| 16 <param name="overlaps" type="select"> | |
| 17 <label>Display the overlapping matches (in red) as well as the minimal set of non-overlapping matches</label> | |
| 18 <option value="no">No</option> | |
| 19 <option value="yes">Yes</option> | |
| 20 </param> | |
| 21 <param name="boxit" type="select"> | |
| 22 <label>Draw a box around dotplot</label> | |
| 23 <option value="yes">Yes</option> | |
| 24 <option value="no">No</option> | |
| 25 </param> | |
| 26 </inputs> | |
| 27 <outputs> | |
| 28 <data format="png" name="out_file1" /> | |
| 29 </outputs> | |
| 30 <!-- functional tests not possible since image output contains file name information and timestamp --> | |
| 31 <help> | |
| 32 You can view the original documentation here_. | |
| 33 | |
| 34 .. _here: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/dotpath.html | |
| 35 </help> | |
| 36 </tool> |