comparison samtools_split.xml @ 7:b6caca6a4ca5 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_split commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c

6:eda9f7aa1d54

<tool id="samtools_split" name="Samtools split" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@">
    <description>BAM dataset on readgroups</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <expand macro="stdio"/>
    <expand macro="version_command"/>
    <command><![CDATA[
    @ADDTHREADS@
    samtools split -f 'Read_Group_%!.bam'
    #if $header:
        -u '${output}:${header}'
    #else:
        -u '${output}'
    #end if
    -@ \$addthreads
    '$input_bam'
    ]]></command>
    <inputs>
        <param name="input_bam" type="data" format="bam" label="BAM file" />

    <help><![CDATA[
**What it does**

Splits BAM files on readgroups.

This tool is based on ``samtools split`` command. It will generate multiple output datasets for each redagroup from the input dataset.
    ]]></help>
    <expand macro="citations"/>
</tool>

7:b6caca6a4ca5

<tool id="samtools_split" name="Samtools split" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
    <description>BAM dataset on readgroups</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <expand macro="stdio"/>
    <expand macro="version_command"/>
    <command><![CDATA[
    @ADDTHREADS@
    samtools split -f 'Read_Group_%!.bam' --output-fmt 'bam'
    #if $header:
        -h $header'
    #end if
    -u '$output'
    -@ \$addthreads
    '$input_bam'
    ]]></command>
    <inputs>
        <param name="input_bam" type="data" format="bam" label="BAM file" />

    <help><![CDATA[
**What it does**

Splits BAM files on readgroups.

This tool is based on ``samtools split`` command. It will generate multiple output datasets for each readgroup from the input dataset.
    ]]></help>
    <expand macro="citations"/>
</tool>