comparison transit_hmm.xml @ 3:a15f2773a7d7 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/transit/ commit bd061799ebd49ada1a666d0815720c18291728da"

2:32da07a53d3b

<?xml version="1.0"?>
<tool id="transit_hmm" name="HMM" version="@VERSION@+galaxy1">
    <description>- determine essentiality of a genome</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <command detect_errors="exit_code"><![CDATA[
    	@LINK_INPUTS@
        transit hmm $input_files annotation.dat transit_out.txt
        @STANDARD_OPTIONS@
        -r $replicates
        $loess
        ]]>
    </command>
    <inputs>
        <expand macro="standard_inputs">
        	<expand macro="replicates" />
            <param name="loess" argument="-l" type="boolean" truevalue="-l" falsevalue="" label="Perform LOESS Correction" help="Helps remove possible genomic position bias." />
        </expand>
    </inputs>
    <outputs>
        <expand macro="outputs">

3:a15f2773a7d7

<?xml version="1.0"?>
<tool id="transit_hmm" name="HMM" version="@VERSION@+galaxy2">
    <description>- determine essentiality of a genome</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <command detect_errors="exit_code"><![CDATA[
    	@LINK_INPUTS@
        transit hmm $input_files annotation.dat transit_out.txt
        @STANDARD_OPTIONS@
        $loess
        ]]>
    </command>
    <inputs>
        <expand macro="standard_inputs">
        	<expand macro="handle_replicates" />
            <param name="loess" argument="-l" type="boolean" truevalue="-l" falsevalue="" label="Perform LOESS Correction" help="Helps remove possible genomic position bias." />
        </expand>
    </inputs>
    <outputs>
        <expand macro="outputs">