comparison auto_threshold.xml @ 8:699a5e9146b3 draft default tip

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/2d_auto_threshold/ commit c86a1b93cb7732f7331a981d13465653cc1a2790

7:e5c8e7e72373

    <description>with scikit-image</description>
    <macros>
        <import>creators.xml</import>
        <import>tests.xml</import>
        <token name="@TOOL_VERSION@">0.18.1</token>
        <token name="@VERSION_SUFFIX@">2</token>
        <xml name="inputs/offset">
            <param name="offset" type="float" value="0" label="Offset" help="Offset to be added to the automatically determined threshold value. Positive values will increase the threshold (and thus reduce the amount of values above the threshold)." />
        </xml>
    </macros>
    <creator>

        <xref type="biii">scikit-image</xref>
    </xrefs>
    <requirements> 
        <requirement type="package" version="@TOOL_VERSION@">scikit-image</requirement>
        <requirement type="package" version="2020.10.1">tifffile</requirement>
    </requirements>
    <command detect_errors="aggressive">
    <![CDATA[
    python '$__tool_directory__/auto_threshold.py'
    '$input'

            <param name="method_id" value="manual"/>
            <param name="threshold" value="64"/>
            <param name="invert_output" value="True"/>
            <expand macro="tests/binary_image_diff" name="output" value="out4.tif" ftype="tiff"/>
        </test>
        <!-- Tests for multi-channel images -->
        <test expect_failure="true">
            <param name="input" value="rgb.png"/>
        </test>
    </tests>

8:699a5e9146b3

    <description>with scikit-image</description>
    <macros>
        <import>creators.xml</import>
        <import>tests.xml</import>
        <token name="@TOOL_VERSION@">0.18.1</token>
        <token name="@VERSION_SUFFIX@">3</token>
        <xml name="inputs/offset">
            <param name="offset" type="float" value="0" label="Offset" help="Offset to be added to the automatically determined threshold value. Positive values will increase the threshold (and thus reduce the amount of values above the threshold)." />
        </xml>
    </macros>
    <creator>

        <xref type="biii">scikit-image</xref>
    </xrefs>
    <requirements> 
        <requirement type="package" version="@TOOL_VERSION@">scikit-image</requirement>
        <requirement type="package" version="2020.10.1">tifffile</requirement>
        <requirement type="package" version="0.1">giatools</requirement>
    </requirements>
    <command detect_errors="aggressive">
    <![CDATA[
    python '$__tool_directory__/auto_threshold.py'
    '$input'

            <param name="method_id" value="manual"/>
            <param name="threshold" value="64"/>
            <param name="invert_output" value="True"/>
            <expand macro="tests/binary_image_diff" name="output" value="out4.tif" ftype="tiff"/>
        </test>
        <!-- Tests for irregular files -->
        <test>
            <param name="input" value="sample2.tif"/>
            <param name="method_id" value="otsu"/>
            <param name="invert_output" value="False"/>
            <expand macro="tests/binary_image_diff" name="output" value="out5.tif" ftype="tiff"/>
        </test>
        <!-- Tests for multi-channel images -->
        <test expect_failure="true">
            <param name="input" value="rgb.png"/>
        </test>
    </tests>