Mercurial > repos > iuc > mykrobe_genotype
diff mykrobe_genotype.xml @ 1:84f769706f7a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mykrobe commit 98633f779dfac95f55fbe30519f4e88da0bb9449
author | iuc |
---|---|
date | Tue, 02 Apr 2019 11:57:05 -0400 |
parents | d783eb846f59 |
children | 0f4a5de7878a |
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--- a/mykrobe_genotype.xml Sat Jan 13 09:02:58 2018 -0500 +++ b/mykrobe_genotype.xml Tue Apr 02 11:57:05 2019 -0400 @@ -1,5 +1,4 @@ -<?xml version="1.0" encoding="utf-8"?> -<tool id="mykrobe_genotype" name="mkyrobe genotype" version="0.5.6" > +<tool id="mykrobe_genotype" name="mkyrobe genotype" version="0.6.1" > <description>Antibiotic resistance predictions</description> <macros> <import>macro.xml</import> @@ -10,17 +9,14 @@ @select_inputs@ mykrobe genotype - '$name' - '$probe_set' + '${name}' + '${probe_set}' - #if $kmer: - --kmer $kmer + #if $filter: + --filters '${filter}' #end if - #if $expected_depth: - --expected_depth $expected_depth - #end if - + @shared_options@ -q -t "\${GALAXY_SLOTS:-1}" @@ -33,14 +29,14 @@ #else *.fasta #end if - > $json + > '$json' ]]> </command> <inputs> <expand macro="inputs" /> - <param name="probe_set" type="data" format="fasta" label="Probe Set"/> - <param name="kmer" argument="--kmer" optional="True" type="integer" min="0" label="Kmer length" value="21" help="default = 21"/> - <param name="expected_depth" argument="--expected_depth" optional="True" type="integer" min="0" label="Expected Depth" help=""/> + <param argument="--probe_set" type="data" format="fasta" label="Probe Set"/> + <param argument="--filter" type="data" format="txt,fasta" label="Filter Genotypes" optional="True" help="Don't include filtered genotypes"/> + <expand macro="options"/> </inputs> <outputs> <data name="json" format="json" label="JSON prediction"/>