comparison macros.xml @ 1:872d8040f713 draft default tip

planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/matchms commit b1cc1aebf796f170d93e3dd46ffcdefdc7b8018a

0:e5010b19d64d

<macros>
    <token name="@TOOL_VERSION@">0.20.0</token>

    <xml name="creator">
        <creator>
            <yield/>
            <person

        </section>
    </xml>

    <xml name="input_param">
        <conditional name="scores">
            <param name="use_scores" label="Use Scores Object" type="boolean" truevalue="TRUE" falsevalue="FALSE"
                   checked="false"/>
            <when value="TRUE">
                <param label="Scores object" name="scores_in" type="data" format="json"
                    help="Scores objects calculated previously using one of the matchms similarity tools." />
                <param label="join type" name="join_type" type="select" display="radio"
                    help="The join type to use for appending scores - see [1] for details.">
                    <option value="left" selected="true">left</option>
                    <option value="inner">inner</option>
                    <option value="right">right</option>
                    <option value="outer">outer</option>
                </param>
            </when>
            <when value="FALSE">
                <param label="Queries spectra" name="queries" type="data" format="msp"
                    help="Query mass spectra to match against references."/>
                <param label="Reference spectra" name="references" type="data" format="msp"
                    help="Reference mass spectra to match against as library."/>
            </when>

    </xml>

<token name="@init_scores@">
from matchms.importing import load_from_msp, scores_from_json
from matchms import Scores
#if $scores.use_scores
scores = scores_from_json("$scores_in")
join_type = "$scores.join_type"
#else
scores = Scores(references=list(load_from_msp("$references")), queries=list(load_from_msp("$queries")), is_symmetric=False)
join_type = "left"

1:872d8040f713

<macros>
    <token name="@TOOL_VERSION@">0.22.0</token>

    <xml name="creator">
        <creator>
            <yield/>
            <person

        </section>
    </xml>

    <xml name="input_param">
        <conditional name="scores">
            <param name="use_scores" label="Use Scores Object" type="select">
                <option value="False" selected="true">FALSE</option>
                <option value="True">TRUE</option>
            </param>
            <when value="True">
                <param label="Scores object" name="scores_in" type="data" format="json"
                    help="Scores objects calculated previously using one of the matchms similarity tools." />
                <param label="join type" name="join_type" type="select" display="radio"
                    help="The join type to use for appending scores - see [1] for details.">
                    <option value="left" selected="true">left</option>
                    <option value="inner">inner</option>
                    <option value="right">right</option>
                    <option value="outer">outer</option>
                </param>
            </when>
            <when value="False">
                <param label="Queries spectra" name="queries" type="data" format="msp"
                    help="Query mass spectra to match against references."/>
                <param label="Reference spectra" name="references" type="data" format="msp"
                    help="Reference mass spectra to match against as library."/>
            </when>

    </xml>

<token name="@init_scores@">
from matchms.importing import load_from_msp, scores_from_json
from matchms import Scores
#if $scores.use_scores == "True"
scores = scores_from_json("$scores_in")
join_type = "$scores.join_type"
#else
scores = Scores(references=list(load_from_msp("$references")), queries=list(load_from_msp("$queries")), is_symmetric=False)
join_type = "left"