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comparison mfassignr_snplot.xml @ 0:6a34bc7afd61 draft

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planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/mfassignr commit 87bb82e07c57753a71d9ce4efc757c4367200d15
author recetox
date Thu, 15 Aug 2024 12:01:34 +0000
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children 7579b0cda787
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-1:000000000000 0:6a34bc7afd61
1 <tool id="mfassignr_snplot" name="MFAssignR SNplot" version="@TOOL_VERSION@+galaxy0" profile="23.0">
2 <description>Noise level assessment using the SNplot function.</description>
3 <macros>
4 <import>macros.xml</import>
5 <import>help.xml</import>
6 </macros>
7 <edam_topics>
8 <edam_topic>topic_3172</edam_topic>
9 </edam_topics>
10 <expand macro="creator"/>
11 <expand macro="requirements" />
12 <command detect_errors="exit_code"><![CDATA[
13 Rscript '${run_script}'
14 ]]></command>
15 <configfiles>
16 <configfile name="run_script"><![CDATA[
17 SNplot <- MFAssignR::SNplot(
18 df = read.delim("$input_file", sep="\t"),
19 cut = $cut,
20 mass = $mass,
21 window.x = $window_x,
22 window.y = $window_y
23 )
24
25 ggplot2::ggsave(filename = "SNplot.png", SNplot)
26 ]]></configfile>
27 </configfiles>
28 <inputs>
29 <expand macro="snplot_param"/>
30 </inputs>
31 <outputs>
32 <data name="SNplot" format="png" label="SNplot by ${tool.name} on ${on_string}" from_work_dir="SNplot.png"/>
33 </outputs>
34 <tests>
35 <test>
36 <param name="input_file" value="QC1_1_POS_500.tabular"/>
37 <param name="cut" value="3294705.63963789"/>
38 <param name="mass" value="300"/>
39 <output name="SNplot" ftype="png" file="snplot/plot.png" />
40 </test>
41 </tests>
42 <help><![CDATA[
43 @SNPLOT_HELP@
44
45 @GENERAL_HELP@
46 ]]></help>
47 <expand macro="citations" />
48 </tool>