comparison auto_threshold.xml @ 6:8bccb36e055a draft

planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/2d_auto_threshold/ commit cb3d628f4c91e996e10dcb35b1168332e692293a

5:7db4fc31dbee

<tool id="ip_threshold" name="Threshold image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
    <description>with scikit-image</description>
    <macros>
        <token name="@TOOL_VERSION@">0.18.1</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <edam_operations>
        <edam_operation>operation_3443</edam_operation>
    </edam_operations>
    <xrefs>

    '$input'
    ./out.tif
    '$th_method.method_id'
    '$th_method.block_size'
    '$th_method.threshold'
    '$invert_output'
    ]]>
    </command>
    <inputs>
        <param name="input" type="data" format="tiff,png" label="Input image" />
        <conditional name="th_method">

            <when value="loc_mean">
                <param name="threshold" type="hidden" value="0" />
                <param name="block_size" type="integer" value="5" label="Odd size of pixel neighborhood for determining the threshold" />
            </when>
        </conditional>
        <param name="invert_output" type="boolean" checked="false" truevalue="True" falsevalue="False" label="Invert output labels" help="Pixels are usually assigned the label 0 if the pixel value is below (or equal to) the threshold, and 255 if it is above the threshold. If this option is activated, pixels are assigned the label 255 if the pixel value is below (or equal to) the threshold, and 0 if it is above the threshold." />
    </inputs>
    <outputs>
       <data format="tiff" name="output" from_work_dir="out.tif" />
    </outputs>
    <tests>

6:8bccb36e055a

<tool id="ip_threshold" name="Threshold image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
    <description>with scikit-image</description>
    <macros>
        <token name="@TOOL_VERSION@">0.18.1</token>
        <token name="@VERSION_SUFFIX@">1</token>
    </macros>
    <edam_operations>
        <edam_operation>operation_3443</edam_operation>
    </edam_operations>
    <xrefs>

    '$input'
    ./out.tif
    '$th_method.method_id'
    '$th_method.block_size'
    '$th_method.threshold'
    $invert_output
    ]]>
    </command>
    <inputs>
        <param name="input" type="data" format="tiff,png" label="Input image" />
        <conditional name="th_method">

            <when value="loc_mean">
                <param name="threshold" type="hidden" value="0" />
                <param name="block_size" type="integer" value="5" label="Odd size of pixel neighborhood for determining the threshold" />
            </when>
        </conditional>
        <param name="invert_output" type="boolean" checked="false" truevalue="--invert_output" falsevalue="" label="Invert output labels" help="Pixels are usually assigned the label 0 if the pixel value is below (or equal to) the threshold, and 255 if it is above the threshold. If this option is activated, pixels are assigned the label 255 if the pixel value is below (or equal to) the threshold, and 0 if it is above the threshold." />
    </inputs>
    <outputs>
       <data format="tiff" name="output" from_work_dir="out.tif" />
    </outputs>
    <tests>