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comparison qiime2__vizard__boxplot.xml @ 0:765052908e52 draft

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__vizard commit 5f71b597c9495eae67a447744fded834f56ca1f7
author q2d2
date Wed, 30 Oct 2024 19:58:59 +0000
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1 <?xml version='1.0' encoding='utf-8'?>
2 <!--
3 Copyright (c) 2024, QIIME 2 development team.
4
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
6 -->
7 <!--
8 This tool was automatically generated by:
9 q2galaxy (version: 2024.10.0)
10 for:
11 qiime2 (version: 2024.10.1)
12 -->
13 <tool name="qiime2 vizard boxplot" id="qiime2__vizard__boxplot" version="0.0.1.dev0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause">
14 <description>Boxplot</description>
15 <xrefs>
16 <xref type="bio.tools">qiime2</xref>
17 </xrefs>
18 <requirements>
19 <container type="docker">quay.io/qiime2/amplicon:2024.10</container>
20 </requirements>
21 <version_command>q2galaxy version vizard</version_command>
22 <command detect_errors="exit_code">q2galaxy run vizard boxplot '$inputs'</command>
23 <configfiles>
24 <inputs name="inputs" data_style="staging_path_and_source_path"/>
25 </configfiles>
26 <inputs>
27 <repeat name="metadata" min="1" help="[required] Any metadata-like input with at least one numeric measure and one categorical measure for visualizing." title="metadata: Metadata">
28 <conditional name="__q2galaxy__GUI__conditional__metadata__">
29 <param name="type" type="select" label="metadata: Metadata">
30 <option value="tsv" selected="true">Metadata from TSV</option>
31 <option value="qza">Metadata from Artifact</option>
32 </param>
33 <when value="tsv">
34 <param name="source" type="data" format="tabular,qiime2.tabular" label="Metadata Source"/>
35 </when>
36 <when value="qza">
37 <param name="source" type="data" format="qza" label="Metadata Source"/>
38 </when>
39 </conditional>
40 </repeat>
41 <param name="distribution_measure" type="text" label="distribution_measure: Str" help="[required] The numeric measure that will be used to create each box plot distribution.">
42 <sanitizer>
43 <valid initial="string.printable"/>
44 </sanitizer>
45 <validator type="expression" message="Please verify this parameter.">value is not None and len(value) &gt; 0</validator>
46 </param>
47 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
48 <conditional name="__q2galaxy__GUI__conditional__group_by__" label="group_by: Str">
49 <param name="__q2galaxy__GUI__select__" type="select" label="group_by: Str" help="[optional] The categorical measure that will be used to group the data into separate box plots. If left blank, all data will be represented within a single box.">
50 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option>
51 <option value="__q2galaxy__::control::provide">Provide a value</option>
52 </param>
53 <when value="__q2galaxy__::control::default">
54 <param name="group_by" type="hidden" value="__q2galaxy__::literal::None"/>
55 </when>
56 <when value="__q2galaxy__::control::provide">
57 <param name="group_by" type="text">
58 <sanitizer>
59 <valid initial="string.printable"/>
60 </sanitizer>
61 </param>
62 </when>
63 </conditional>
64 <param name="whisker_range" type="select" label="whisker_range: Str % Choices('tukeys_iqr', 'percentile', 'minmax')" display="radio">
65 <option value="tukeys_iqr">tukeys_iqr</option>
66 <option value="percentile" selected="true">percentile</option>
67 <option value="minmax">minmax</option>
68 </param>
69 <param name="box_orientation" type="select" label="box_orientation: Str % Choices('horizontal', 'vertical')" display="radio">
70 <option value="horizontal" selected="true">horizontal</option>
71 <option value="vertical">vertical</option>
72 </param>
73 <conditional name="__q2galaxy__GUI__conditional__title__" label="title: Str">
74 <param name="__q2galaxy__GUI__select__" type="select" label="title: Str" help="[optional] The title of the boxplot.">
75 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option>
76 <option value="__q2galaxy__::control::provide">Provide a value</option>
77 </param>
78 <when value="__q2galaxy__::control::default">
79 <param name="title" type="hidden" value="__q2galaxy__::literal::None"/>
80 </when>
81 <when value="__q2galaxy__::control::provide">
82 <param name="title" type="text">
83 <sanitizer>
84 <valid initial="string.printable"/>
85 </sanitizer>
86 </param>
87 </when>
88 </conditional>
89 </section>
90 </inputs>
91 <outputs>
92 <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/>
93 </outputs>
94 <tests/>
95 <help>
96 QIIME 2: vizard boxplot
97 =======================
98 Boxplot
99
100
101 Outputs:
102 --------
103 :visualization.qzv: &lt;no description&gt;
104
105 |
106
107 Description:
108 ------------
109 Basic boxplot for visualizing a numeric Metadata measure grouped by a categorical Metadata measure with choices for the whisker range.
110
111
112 |
113
114 </help>
115 <citations>
116 <citation type="doi">10.1038/s41587-019-0209-9</citation>
117 </citations>
118 </tool>