<tool id="regionalgam_gls" name="Model temporal trend" version="@VERSION@">
    <description>with a simple linear regression</description>
    <macros>
        <import>regionalgam_macros.xml</import>
    </macros>
    <expand macro="rg_nlme_mass_requirements"/>
    <command detect_errors="exit_code"><![CDATA[
        Rscript '$__tool_directory__/gls.R' 
            '$collated_index' '$ab_indices' 
            '$output' '$output2' 
    ]]>
    </command>
    <inputs>
        <expand macro="rg_collated_index"/> 
        <expand macro="rg_ab_indices"/> 
    </inputs>
    <outputs>
        <data format="txt" name="output" from_work_dir="mod-summary.txt" />
        <data format="rdata" name="output2" from_work_dir="mod.rda" />
    </outputs>
    <tests>
        <test> 
            <param name="collated_index" value="s_glmmpql.tabular"/>
            <param name="ab_indices" value="s_data_index.tabular"/>
            <output name="output" file="s_gls_sum.txt"/>
            <output name="output2" file="s_gls_rda.rda"/>
        </test>
    </tests>
    <help><![CDATA[
==========================
Model temporal trend
==========================

This tool is an implementation of the gls function from RegionalGAM package:  https://github.com/RetoSchmucki/regionalGAM/

This function model temporal trend with a simple linear regression.

|

**Outputs**

The tool returns the linear regression model in an Rdata file.

It also returns a summary of this model in txt format.
    ]]></help>
    <expand macro="rg_citation"/>
</tool>