comparison dada2_dada.xml @ 6:088b980f5f09 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dada2 commit ea6c9c638e742c097b0ef294161eeea447c09e06

5:e55eb3d22f79

<tool id="dada2_dada" name="dada2: dada" version="@DADA2_VERSION@+galaxy@WRAPPER_VERSION@" profile="19.09">
    <description>Remove sequencing errors</description>
    <expand macro="bio_tools"/>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <expand macro="stdio"/>
    <expand macro="version_command"/>
    <command detect_errors="exit_code"><![CDATA[
    #if $batch_cond.batch_select == "no"

        <!-- not needed for end user I guess
        <expand macro="errorEstimationFunction"/>
        <param name="selfconsist" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Alternate between sample inference and error rate estimation until convergence"/>-->
    </inputs>
    <outputs>
        <data name="dada" format="dada2_dada">
            <filter>batch_cond['batch_select']=="yes"</filter>
        </data>
        <collection name="data_collection" type="list">
            <discover_datasets pattern="(?P&lt;name&gt;.+)\.dada2_dada" format="dada2_dada" directory="output" />
            <filter>batch_cond['batch_select']=="no"</filter>
        </collection>
    </outputs>
    <tests>
        <!-- default, non batch -->

6:088b980f5f09

<tool id="dada2_dada" name="dada2: dada" version="@DADA2_VERSION@+galaxy@WRAPPER_VERSION@" profile="19.09">
    <description>Remove sequencing errors</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="bio_tools"/>
    <expand macro="requirements"/>
    <expand macro="stdio"/>
    <expand macro="version_command"/>
    <command detect_errors="exit_code"><![CDATA[
    #if $batch_cond.batch_select == "no"

        <!-- not needed for end user I guess
        <expand macro="errorEstimationFunction"/>
        <param name="selfconsist" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Alternate between sample inference and error rate estimation until convergence"/>-->
    </inputs>
    <outputs>
        <data name="dada" format="dada2_dada" label="${tool.name} on ${on_string}">
            <filter>batch_cond['batch_select']=="yes"</filter>
        </data>
        <collection name="data_collection" type="list" label="${tool.name} on ${on_string}: outputs">
            <discover_datasets pattern="(?P&lt;name&gt;.+)\.dada2_dada" format="dada2_dada" directory="output"/>
            <filter>batch_cond['batch_select']=="no"</filter>
        </collection>
    </outputs>
    <tests>
        <!-- default, non batch -->