annotate macros.xml @ 1:ccc0e55c9e16 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/enasearch commit 11ee7ac206d41894c0b6a11f2439aaea490824f0

<?xml version="1.0" ?>
<macros>
    <token name="@WRAPPER_VERSION@">0.1.1</token>
    <xml name="version">
        <version_command>@WRAPPER_VERSION@</version_command>
    </xml>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@WRAPPER_VERSION@">enasearch</requirement>
            <yield/>
        </requirements>
    </xml>
    <xml name="citations"/>
    <token name="@IDS@">
<![CDATA[
    #for $id in str($ids).split(',')
        --ids '$id'
    #end for
]]>
    </token>
    <xml name="display_opt">
        <conditional name="display_opt">
            <param argument="--display" type="select" label="Display option to specify the display format">
                <expand macro="display_options"/>
            </param>
            <expand macro="when_display_options"/>
        </conditional>
    </xml>
    <token name="@DISPLAY@">
<![CDATA[
    --display '$display_opt.display'
    #if $display_opt.display == 'fasta' or $display_opt.display == 'fastq'
        #if str($display_opt.range_start) != '' and str($display_opt.range_stop) != ''
            --subseq_range '$display_opt.range_start'-'$display_opt.range_stop'
        #end if
    #else
        #if str($display_opt.offset) != ''
            --offset '$display_opt.offset'
        #end if
        #if str($display_opt.length) != ''
            --length '$display_opt.length'
        #end if
    #end if
]]>
    </token>
    <xml name="expanded">
        <param argument="--expanded" type="boolean" truevalue="--expanded" falsevalue="" label="Expand a CON record?"/>
    </xml>
    <xml name="header">
        <param argument="--header" type="boolean" truevalue="--header" falsevalue="" label="Obtain only the header of a record?"/>
    </xml>
    <xml name="accession">
        <param argument="--accession" type="text" label="Accession id" help="Study accessions (ERP, SRP, DRP, PRJ prefixes), experiment accessions (ERX, SRX, DRX prefixes), sample accessions (ERS, SRS, DRS, SAM prefixes) and run accessions"/>
    </xml>
    <token name="@FIELDS@">
<![CDATA[
    #if $fields
        #for $f in str($fields).split(',')
            --fields '$f'
        #end for
    #end if
]]>
    </token>
    <xml name="change_format">
        <change_format>
            <when input="display_opt.display" value="fasta" format="fasta" />
            <when input="display_opt.display" value="fastq" format="fastq" />
            <when input="display_opt.display" value="html" format="html" />
            <when input="display_opt.display" value="text" format="txt" />
            <when input="display_opt.display" value="xml" format="xml" />
        </change_format>
    </xml>
    <token name="@SEARCH_DATA_DISPLAY@">
<![CDATA[
    --display '$query_type.res.display_opt.display'
    #if $query_type.res.display_opt.display != 'fasta' and $query_type.res.display_opt.display != 'fastq'
        #if str($query_type.res.display_opt.offset) != ''
            --offset '$query_type.res.display_opt.offset'
        #end if
        #if str($query_type.res.display_opt.length) != ''
            --length '$query_type.res.display_opt.length'
        #end if
        #if $query_type.res.display_opt.display == 'report'
            #for $f in str($query_type.res.display_opt.fields).split(',')
                --fields '$f'
            #end for
            #if $query_type.res.display_opt.sortfields
                #for $f in str($query_type.res.display_opt.sortfields).split(',')
                    --sortfields '$f'
                #end for
            #end if
        #end if
    #end if
]]>
    </token>
</macros>