comparison bcftools_isec.xml @ 19:83c351567b3f draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bcftools commit db275932cbb485cb44ae91e0b421d6f57698db49

18:254f2887c116

<?xml version='1.0' encoding='utf-8'?>
<tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@TOOL_VERSION@+galaxy1">
    <description>Create intersections, unions and complements of VCF files</description>
    <macros>
        <token name="@EXECUTABLE@">isec</token>
        <import>macros.xml</import>
    </macros>

                    <has_text text="3162006" />
                    <not_has_text text="3062915" />
                </assert_contents>
            </output>
        </test>

    </tests>
    <help><![CDATA[
=====================================
 bcftools @EXECUTABLE@
=====================================

19:83c351567b3f

<?xml version='1.0' encoding='utf-8'?>
<tool name="bcftools @EXECUTABLE@" id="bcftools_@EXECUTABLE@" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
    <description>Create intersections, unions and complements of VCF files</description>
    <macros>
        <token name="@EXECUTABLE@">isec</token>
        <import>macros.xml</import>
    </macros>

                    <has_text text="3162006" />
                    <not_has_text text="3062915" />
                </assert_contents>
            </output>
        </test>
        <!-- Test region overlap option -->
        <test>
            <param name="input_files" ftype="vcf" value="isec.b.vcf,isec.a.vcf" />
            <param name="nfiles" value="=2" />
            <param name="output_type" value="v" />
            <section name="sec_restrict">
                <param name="regions_overlap" value="1"/>
            </section>
            <output name="output_file">
                <assert_contents>
                    <has_text text="3157410" />
                    <has_text text="3162006" />
                    <not_has_text text="3062915" />
                </assert_contents>
            </output>
            <assert_command>
                <has_text text="--regions-overlap" />
            </assert_command>
        </test>
    </tests>
    <help><![CDATA[
=====================================
 bcftools @EXECUTABLE@
=====================================