Mercurial > repos > devteam > emboss_5
diff 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 |
|---|---|
| date | Wed, 08 Feb 2017 12:42:22 -0500 |
| parents | |
| children | 8992d258e42f |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/emboss_lindna.xml Wed Feb 08 12:42:22 2017 -0500 @@ -0,0 +1,72 @@ +<tool id="EMBOSS: lindna48" name="lindna" version="5.0.0.1"> + <!-- tool produces memory error in ajmem.c --> + <description>Draws linear maps of DNA constructs</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command>lindna -infile '$input1' -graphout png -goutfile '$out_file1' -ruler $ruler -blocktype $blocktype -maxgroups $maxgroups -maxlabels $maxlabels -intersymbol $intersymbol -intercolour $intercolour + -interticks $interticks -gapsize $gapsize -ticklines $ticklines -textheight $textheight -textlength $textlength -margin $margin -tickheight $tickheight -blockheight $blockheight -rangeheight + $rangeheight -gapgroup $gapgroup -postext $postext -auto</command> + <inputs> + <param name="input1" type="data" format="data" label="Sequences" /> + <param name="ruler" type="select" label="Draw a ruler"> + <option value="yes">Yes</option> + <option value="no">No</option> + </param> + <param name="blocktype" type="select" label="Type of blocks"> + <option value="Filled">Filled blocks</option> + <option value="Open">Open blocks</option> + <option value="Outline">Black border</option> + </param> + <param name="maxgroups" type="integer" value="20" label="Maximum number of groups" /> + <param name="maxlabels" type="integer" value="10000" label="Maximum number of labels" /> + <param name="intersymbol" type="select" label="Type of blocks"> + <option value="Straight">Straight</option> + </param> + <param name="intercolour" type="select" label="Colour of junctions between blocks"> + <option value="1">Red</option> + <option value="0">Black</option> + <option value="2">Yellow</option> + <option value="3">Green</option> + <option value="4">Aquamarine</option> + <option value="5">Pink</option> + <option value="6">Wheat</option> + <option value="7">Grey</option> + <option value="8">Brown</option> + <option value="9">Blue</option> + <option value="10">Blue-violet</option> + <option value="11">Cyan</option> + <option value="12">Turquoise</option> + <option value="13">Magenta</option> + <option value="14">Salmon</option> + <option value="15">White</option> + </param> + <param name="interticks" type="select" label="Horizontal junctions between ticks"> + <option value="no">No</option> + <option value="yes">Yes</option> + </param> + <param name="gapsize" type="integer" value="500" label="Interval between ticks in the ruler" /> + <param name="ticklines" type="select" label="Vertical lines at the ruler's ticks"> + <option value="no">No</option> + <option value="yes">Yes</option> + </param> + <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" /> + <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" /> + <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" /> + <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" /> + <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" /> + <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" /> + <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" /> + <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" /> + </inputs> + <outputs> + <data name="out_file1" format="png" /> + </outputs> + <help> + You can view the original documentation here_. + + .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/lindna.html + </help> + <expand macro="citations" /> +</tool>