comparison mcl.xml @ 1:e092787c0a29 draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/mcl commit 8e05c68204da92683c62cb5448a1b3865ffe2683

0:649b9cb20668

<tool id="mcl" name="MCL" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
    <description>Markov Cluster Algorithm for graphs</description>
    <macros>
        <token name="@TOOL_VERSION@">14.137</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <xrefs>
        <xref type="bio.tools">mcl</xref>
    </xrefs>

                <option value="--abc" selected="true">Labeled</option>
                <option value="--sif">SIF</option>
                <option value="">Matrix</option>
            </param>
            <when value="">
                <param type="data" format="tabular" name="use_tab" argument="-use-tab" label="tabular label input" optional="true" help="use tab file to convert the output to labels"/>
            </when>
            <when value="--sif">
                <param type="boolean" name="expect_values" checked="false" truevalue="--expect-values" falsevalue="" argument="--expect-values" label="expect label:weight format" optional="true" help="accept extended SIF (label:weight fields)" />
            </when>
            <when value="--abc" />
        </conditional>
        <param type="data" format="txt,tabular,sif" name="input" label="Input" optional="false" />
        <param name="inflation" argument="-I" type="float" value="2.0" label="Inflation" min="1" max="6" help="This value is the main handle for affecting cluster granularity. It is usually chosen somewhere in the range [1.2-5.0]. -I 5.0 will tend to result in fine-grained clusterings, and -I 1.2 will tend to result in very coarse grained clusterings. Your mileage will vary depending on the characteristics of your data. That is why it is a good idea to test the quality and coherency of your clusterings using clm dist and clm info. This will most likely reveal that certain values of -I are simply not right for your data." />

1:e092787c0a29

<tool id="mcl" name="MCL" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="21.05">
    <description>Markov Cluster Algorithm for graphs</description>
    <macros>
        <token name="@TOOL_VERSION@">22.282</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <xrefs>
        <xref type="bio.tools">mcl</xref>
    </xrefs>

                <option value="--abc" selected="true">Labeled</option>
                <option value="--sif">SIF</option>
                <option value="">Matrix</option>
            </param>
            <when value="">
                <param argument="-use-tab" type="data" format="tabular" label="tabular label input" optional="true" help="use tab file to convert the output to labels"/>
            </when>
            <when value="--sif">
                <param argument="--expect-values" type="boolean" checked="false" truevalue="--expect-values" falsevalue="" label="expect label:weight format" optional="true" help="accept extended SIF (label:weight fields)" />
            </when>
            <when value="--abc" />
        </conditional>
        <param type="data" format="txt,tabular,sif" name="input" label="Input" optional="false" />
        <param name="inflation" argument="-I" type="float" value="2.0" label="Inflation" min="1" max="6" help="This value is the main handle for affecting cluster granularity. It is usually chosen somewhere in the range [1.2-5.0]. -I 5.0 will tend to result in fine-grained clusterings, and -I 1.2 will tend to result in very coarse grained clusterings. Your mileage will vary depending on the characteristics of your data. That is why it is a good idea to test the quality and coherency of your clusterings using clm dist and clm info. This will most likely reveal that certain values of -I are simply not right for your data." />