Mercurial > repos > devteam > emboss_5
comparison emboss_lindna.xml @ 10:d49956b87f7e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
author | iuc |
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date | Wed, 08 Feb 2017 12:42:22 -0500 |
parents | |
children | 8992d258e42f |
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9:511429456d3c | 10:d49956b87f7e |
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1 <tool id="EMBOSS: lindna48" name="lindna" version="5.0.0.1"> | |
2 <!-- tool produces memory error in ajmem.c --> | |
3 <description>Draws linear maps of DNA constructs</description> | |
4 <macros> | |
5 <import>macros.xml</import> | |
6 </macros> | |
7 <expand macro="requirements" /> | |
8 <command>lindna -infile '$input1' -graphout png -goutfile '$out_file1' -ruler $ruler -blocktype $blocktype -maxgroups $maxgroups -maxlabels $maxlabels -intersymbol $intersymbol -intercolour $intercolour | |
9 -interticks $interticks -gapsize $gapsize -ticklines $ticklines -textheight $textheight -textlength $textlength -margin $margin -tickheight $tickheight -blockheight $blockheight -rangeheight | |
10 $rangeheight -gapgroup $gapgroup -postext $postext -auto</command> | |
11 <inputs> | |
12 <param name="input1" type="data" format="data" label="Sequences" /> | |
13 <param name="ruler" type="select" label="Draw a ruler"> | |
14 <option value="yes">Yes</option> | |
15 <option value="no">No</option> | |
16 </param> | |
17 <param name="blocktype" type="select" label="Type of blocks"> | |
18 <option value="Filled">Filled blocks</option> | |
19 <option value="Open">Open blocks</option> | |
20 <option value="Outline">Black border</option> | |
21 </param> | |
22 <param name="maxgroups" type="integer" value="20" label="Maximum number of groups" /> | |
23 <param name="maxlabels" type="integer" value="10000" label="Maximum number of labels" /> | |
24 <param name="intersymbol" type="select" label="Type of blocks"> | |
25 <option value="Straight">Straight</option> | |
26 </param> | |
27 <param name="intercolour" type="select" label="Colour of junctions between blocks"> | |
28 <option value="1">Red</option> | |
29 <option value="0">Black</option> | |
30 <option value="2">Yellow</option> | |
31 <option value="3">Green</option> | |
32 <option value="4">Aquamarine</option> | |
33 <option value="5">Pink</option> | |
34 <option value="6">Wheat</option> | |
35 <option value="7">Grey</option> | |
36 <option value="8">Brown</option> | |
37 <option value="9">Blue</option> | |
38 <option value="10">Blue-violet</option> | |
39 <option value="11">Cyan</option> | |
40 <option value="12">Turquoise</option> | |
41 <option value="13">Magenta</option> | |
42 <option value="14">Salmon</option> | |
43 <option value="15">White</option> | |
44 </param> | |
45 <param name="interticks" type="select" label="Horizontal junctions between ticks"> | |
46 <option value="no">No</option> | |
47 <option value="yes">Yes</option> | |
48 </param> | |
49 <param name="gapsize" type="integer" value="500" label="Interval between ticks in the ruler" /> | |
50 <param name="ticklines" type="select" label="Vertical lines at the ruler's ticks"> | |
51 <option value="no">No</option> | |
52 <option value="yes">Yes</option> | |
53 </param> | |
54 <param name="textheight" type="float" value="1.0" label="Height of text" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
55 <param name="textlength" type="float" value="1.0" label="Length of text" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
56 <param name="margin" type="float" value="1.0" label="Width of left margin" help="This is the region left to the groups where the names of the groups are displayed. Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
57 <param name="tickheight" type="float" value="1.0" label="Height of ticks" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
58 <param name="blockheight" type="float" value="1.0" label="Height of blocks" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
59 <param name="rangeheight" type="float" value="1.0" label="Height of range ends" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
60 <param name="gapgroup" type="float" value="1.0" label="Space between groups" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
61 <param name="postext" type="float" value="1.0" label="Space between text and ticks, blocks, and ranges" help="Enter a number <1.0 or >1.0 to decrease or increase the size, respectively" /> | |
62 </inputs> | |
63 <outputs> | |
64 <data name="out_file1" format="png" /> | |
65 </outputs> | |
66 <help> | |
67 You can view the original documentation here_. | |
68 | |
69 .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/lindna.html | |
70 </help> | |
71 <expand macro="citations" /> | |
72 </tool> |