view IdValiden.xml @ 0:8c472c4f1bf5 draft

planemo upload for repository https://github.com/galaxyecology/tools-ecology/tools/vigiechiro commit d2de8e10c11bfa3b04729e59bba58e08d23b56aa

<tool id="vigiechiro_idvalid" name="Tadarida identifications integration" version="@VERSION@">
    <description>Integrate identifications from animal detection on acoustic recordings</description>
    <macros>
        <import>vigiechiro_macros.xml</import>
    </macros>
    <requirements>
        <requirement type="package" version="1.10.4">r-data.table</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        Rscript '$__tool_directory__/IdValid.R' 
            '$inputfile'  
            '$__tool_directory__/Referentiel_seuils_C2.csv'  
            '$output'
]]>
    </command>
    <inputs>
        <param name="inputfile" type="data" format="tabular" label="Corrected observation file" help="Use output file from Tadarida data clean : a sampling session file corrected."/>	    
    </inputs>
    <outputs>
        <data name="output" format="tabular" from_work_dir="output.tabular" label="${tool.name} on ${on_string}"/>
    </outputs>
    <tests>
        <test>
            <param name="inputfile" value="IdCor2Layer_Test1_out.tabular"/>
            <output name="output" file="BilanEnrichiPF_Test1.tabular"/>
        </test>
    </tests>
    <help><![CDATA[
.. class:: infomark 

=====================================
Tadarida identifications integration
=====================================

**What it does**

This tool allows to integrate identifications made by observers and validators and will provide an input for synthesis of participations. 


**Arguments**

- The input is a tabular file, output from the tool Tadarida data cleaner.
- The output is a single tabular file with validated Ids
  ]]></help>
    <expand macro="vigiechiro_bibref" />
</tool>