Mercurial > repos > earlhaminst > hcluster_sg
changeset 4:1d2de27d7a9c draft default tip
planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/hcluster_sg commit 0708ef50f591185e974e481c306682088e8f13c0-dirty
| author | earlhaminst |
|---|---|
| date | Thu, 09 Nov 2017 06:56:32 -0500 |
| parents | 891cc66ea91b |
| children | |
| files | hcluster_sg.xml |
| diffstat | 1 files changed, 35 insertions(+), 25 deletions(-) [+] |
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--- a/hcluster_sg.xml Thu May 18 14:10:32 2017 -0400 +++ b/hcluster_sg.xml Thu Nov 09 06:56:32 2017 -0500 @@ -1,4 +1,4 @@ -<tool id="hcluster_sg" name="hcluster_sg" version="0.5.1"> +<tool id="hcluster_sg" name="hcluster_sg" version="0.5.1.1"> <description>Hierarchically clustering on a sparse graph</description> <requirements> <requirement type="package" version="0.5.1">hcluster_sg</requirement> @@ -6,40 +6,50 @@ <command detect_errors="exit_code"><![CDATA[ hcluster_sg -w $w --s $s --m $m -$c --b $b -$O.O_selector -#if $O.O_selector == '-O' - -r $O.r +$c_conditional.c +#if $c_conditional.c == '' + -s $c_conditional.s + -m $c_conditional.m + -b $c_conditional.b + $c_conditional.O.O_selector + #if $c_conditional.O.O_selector == '-O' + -r $c_conditional.O.r + #end if + #if $c_conditional.C + -C '$c_conditional.C' + #end if + -L $c_conditional.L #end if -#if $C - -C '$C' -#end if --L $L '$inputFile' > '$outputFile' ]]></command> <inputs> <param name="inputFile" type="data" format="tabular" label="Weight file" help="3-columns format: id-1 id-2 integer-weight" /> <param argument="-w" type="integer" min="0" value="20" label="Minimum edge weight" /> - <param argument="-s" type="float" value="0.5" label="Minimum edge density between a join" /> - <param argument="-m" type="integer" value="500" label="Maximum size" /> - <param argument="-c" type="boolean" truevalue="-c" falsevalue="" label="Only find single-linkage clusters" help="Bypass h-cluster" /> - <param argument="-b" type="float" value="0.1" label="Breaking edge density" /> - <conditional name="O"> - <param name="O_selector" argument="-O" type="select" label="Use once-fail-inactive-forever mode"> - <option value="-O">Yes</option> + <conditional name="c_conditional"> + <param argument="-c" type="select" label="Only find single-linkage clusters" help="Bypass h-cluster"> + <option value="-c">Yes</option> <option value="" selected="true">No</option> </param> - <when value="-O"> - <param argument="-r" type="integer" value="5" label="Weight resolution" /> + <when value="-c" /> + <when value=""> + <param argument="-s" type="float" value="0.5" label="Minimum edge density between a join" /> + <param argument="-m" type="integer" value="500" label="Maximum size" /> + <param argument="-b" type="float" value="0.1" label="Breaking edge density" /> + <conditional name="O"> + <param name="O_selector" argument="-O" type="select" label="Use once-fail-inactive-forever mode"> + <option value="-O">Yes</option> + <option value="" selected="true">No</option> + </param> + <when value="-O"> + <param argument="-r" type="integer" value="5" label="Weight resolution" /> + </when> + <when value="" /> + </conditional> + <param argument="-C" type="data" format="tabular" optional="true" label="Category file" /> + <param argument="-L" type="integer" value="2" label="Stringency level" /> </when> - <when value="" /> </conditional> - <param argument="-C" type="data" format="tabular" optional="true" label="Category file" /> - <param argument="-L" type="integer" value="2" label="Stringency level" /> </inputs> <outputs> <data name="outputFile" format="tabular" label="${tool.name} on ${on_string}" /> @@ -51,7 +61,7 @@ </test> <test> <param name="inputFile" ftype="tabular" value="exam-1.txt" /> - <param name="c" value="true" /> + <param name="c" value="-c" /> <output name="outputFile" file="hcluster_sg2.txt" /> </test> </tests>