view split_labelmap.xml @ 1:9db1c22dbe17 draft

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/split_labelmaps/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf

<tool id="ip_split_labelmap" name="Split label map using morphological operators" version="0.2-2">
    <description></description>
    <edam_operations>
        <edam_operation>operation_3443</edam_operation>
    </edam_operations>
    <xrefs>
        <xref type="bio.tools">galaxy_image_analysis</xref>
    </xrefs>
    <requirements>  
        <requirement type="package" version="0.14.2">scikit-image</requirement>
        <requirement type="package" version="1.15.4">numpy</requirement>
        <requirement type="package" version="0.15.1">tifffile</requirement>
    </requirements>
    <command detect_errors="aggressive"> 
        <![CDATA[
        python '$__tool_directory__/split_labelmap.py' '$input' '$output'
        ]]>
    </command>
    <inputs> 
        <param name="input" type="data" format="tiff,png,jpg,bmp" label="Image containing labels"/> 
    </inputs>
    <outputs>
        <data name="output" format="tiff"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="sample_seg.tif"/>
            <output name="output" value="out.tif" ftype="tiff" compare="sim_size"/>
        </test>
    </tests>
    <help>
    **What it does**

    Takes a labeled image and outputs a similar file where the labeled parts
    of the image that touch (or overlap) are separated by at least 1 pixel (at most 2).
    </help>
    <citations>
        <citation type="doi">10.1016/j.jbiotec.2017.07.019</citation>
    </citations>
</tool>