|
0
|
1 <tool id="plot_trend" name="Plot abundance" version="0.1">
|
|
|
2 <description>with trend line</description>
|
|
|
3 <requirements>
|
|
|
4 <requirement type="package" version="3.1_131">r-nlme</requirement>
|
|
|
5 <requirement type="package" version="7.3_48">r-mass</requirement>
|
|
|
6 <requirement type="package" version="0.9.10">xorg-libxrender</requirement>
|
|
|
7 <requirement type="package" version="1.1.2">xorg-libsm</requirement>
|
|
|
8 </requirements>
|
|
|
9 <command detect_errors="exit_code"><![CDATA[
|
|
|
10 Rscript '$__tool_directory__/plot_trend.R' '$input1' '$input2' '$output' ]]>
|
|
|
11 </command>
|
|
|
12 <inputs>
|
|
|
13 <param format="tabular" name="input1" type="data" label="File generated by the ab_index tool"/>
|
|
|
14 <param format="rdata" name="input2" type="data" label="gls model" help="Rdata File"/>
|
|
|
15 </inputs>
|
|
|
16 <outputs>
|
|
|
17 <data format="png" name="output" from_work_dir="output-plot-trend.png" />
|
|
|
18 </outputs>
|
|
|
19 <tests>
|
|
|
20 <test>
|
|
|
21 <param name="input1" value="data_index.tabular"/>
|
|
|
22 <param name="input2" value="gls-adju_rda.rda"/>
|
|
|
23 <output name="output" value="trend.png"/>
|
|
|
24 </test>
|
|
|
25 </tests>
|
|
|
26 <help><![CDATA[
|
|
|
27
|
|
|
28 .. class:: infomark
|
|
|
29
|
|
|
30 ==========================
|
|
|
31 Plot abundance trend
|
|
|
32 ==========================
|
|
|
33
|
|
1
|
34 This tool is an implementation of the plot_trend function from RegionalGAM package: https://github.com/RetoSchmucki/regionalGAM/
|
|
0
|
35 This function plot abundance and add a trend line.
|
|
|
36 ]]></help>
|
|
|
37 <citations>
|
|
|
38 <citation type="doi">10.1111/1365-2664.12561</citation>
|
|
|
39 </citations>
|
|
|
40 </tool>
|
