Mercurial > repos > q2d2 > qiime2__quality_control__decontam_identify

comparison qiime2__quality_control__decontam_identify.xml @ 4:6e6608be01ae draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__quality_control commit b1fccfb38b4873cd4699743033449014a2978e7d
author q2d2
date Mon, 05 May 2025 19:01:15 +0000
parents 653d55f191df
children dc49ac1f3e70
comparison
equal deleted inserted replaced
3:653d55f191df 4:6e6608be01ae
1 <?xml version='1.0' encoding='utf-8'?> 1 <?xml version='1.0' encoding='utf-8'?>
2 <!-- 2 <!--
3 Copyright (c) 2024, QIIME 2 development team. 3 Copyright (c) 2025, QIIME 2 development team.
4 4
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
6 --> 6 -->
7 <!-- 7 <!--
8 This tool was automatically generated by: 8 This tool was automatically generated by:
9 q2galaxy (version: 2024.10.0) 9 q2galaxy (version: 2025.4.0)
10 for: 10 for:
11 qiime2 (version: 2024.10.1) 11 qiime2 (version: 2025.4.0)
12 --> 12 -->
13 <tool name="qiime2 quality-control decontam-identify" id="qiime2__quality_control__decontam_identify" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 quality-control decontam-identify" id="qiime2__quality_control__decontam_identify" version="2025.4.0+q2galaxy.2025.4.0" profile="22.05" license="BSD-3-Clause">
14 <description>Identify contaminants</description> 14 <description>Identify contaminants</description>
15 <xrefs> 15 <xrefs>
16 <xref type="bio.tools">qiime2</xref> 16 <xref type="bio.tools">qiime2</xref>
17 </xrefs> 17 </xrefs>
18 <requirements> 18 <requirements>
19 <container type="docker">quay.io/qiime2/amplicon:2024.10</container> 19 <container type="docker">quay.io/qiime2/amplicon:2025.4</container>
20 </requirements> 20 </requirements>
21 <version_command>q2galaxy version quality_control</version_command> 21 <version_command>q2galaxy version quality_control</version_command>
22 <command detect_errors="exit_code">q2galaxy run quality_control decontam_identify '$inputs'</command> 22 <command detect_errors="exit_code">q2galaxy run quality_control decontam_identify '$inputs'</command>
23 <configfiles> 23 <configfiles>
24 <inputs name="inputs" data_style="staging_path_and_source_path"/> 24 <inputs name="inputs" data_style="staging_path_and_source_path"/>
49 <option value="combined">combined</option> 49 <option value="combined">combined</option>
50 <option value="frequency">frequency</option> 50 <option value="frequency">frequency</option>
51 <option value="prevalence" selected="true">prevalence</option> 51 <option value="prevalence" selected="true">prevalence</option>
52 </param> 52 </param>
53 <conditional name="__q2galaxy__GUI__conditional__freq_concentration_column__" label="freq_concentration_column: Str"> 53 <conditional name="__q2galaxy__GUI__conditional__freq_concentration_column__" label="freq_concentration_column: Str">
54 <param name="__q2galaxy__GUI__select__" type="select" label="freq_concentration_column: Str" help="[optional] Input column name that has concentration information for the samples"> 54 <param name="__q2galaxy__GUI__select__" type="select" label="freq_concentration_column: Str" help="[optional] Input column name that has concentration information for the samples, used in Frequency or Combined methods">
55 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option> 55 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option>
56 <option value="__q2galaxy__::control::provide">Provide a value</option> 56 <option value="__q2galaxy__::control::provide">Provide a value</option>
57 </param> 57 </param>
58 <when value="__q2galaxy__::control::default"> 58 <when value="__q2galaxy__::control::default">
59 <param name="freq_concentration_column" type="hidden" value="__q2galaxy__::literal::None"/> 59 <param name="freq_concentration_column" type="hidden" value="__q2galaxy__::literal::None"/>
65 </sanitizer> 65 </sanitizer>
66 </param> 66 </param>
67 </when> 67 </when>
68 </conditional> 68 </conditional>
69 <conditional name="__q2galaxy__GUI__conditional__prev_control_column__" label="prev_control_column: Str"> 69 <conditional name="__q2galaxy__GUI__conditional__prev_control_column__" label="prev_control_column: Str">
70 <param name="__q2galaxy__GUI__select__" type="select" label="prev_control_column: Str" help="[optional] Input column name containing experimental or control sample metadata"> 70 <param name="__q2galaxy__GUI__select__" type="select" label="prev_control_column: Str" help="[optional] Input column name containing experimental or control sample metadata, used in Prevalence or Combined methods">
71 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option> 71 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option>
72 <option value="__q2galaxy__::control::provide">Provide a value</option> 72 <option value="__q2galaxy__::control::provide">Provide a value</option>
73 </param> 73 </param>
74 <when value="__q2galaxy__::control::default"> 74 <when value="__q2galaxy__::control::default">
75 <param name="prev_control_column" type="hidden" value="__q2galaxy__::literal::None"/> 75 <param name="prev_control_column" type="hidden" value="__q2galaxy__::literal::None"/>
81 </sanitizer> 81 </sanitizer>
82 </param> 82 </param>
83 </when> 83 </when>
84 </conditional> 84 </conditional>
85 <conditional name="__q2galaxy__GUI__conditional__prev_control_indicator__" label="prev_control_indicator: Str"> 85 <conditional name="__q2galaxy__GUI__conditional__prev_control_indicator__" label="prev_control_indicator: Str">
86 <param name="__q2galaxy__GUI__select__" type="select" label="prev_control_indicator: Str" help="[optional] indicate the control sample identifier (e.g. &quot;control&quot; or &quot;blank&quot;)"> 86 <param name="__q2galaxy__GUI__select__" type="select" label="prev_control_indicator: Str" help="[optional] indicate the control sample identifier (e.g. &quot;control&quot; or &quot;blank&quot;), used in Prevalence or Combined methods">
87 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option> 87 <option value="__q2galaxy__::control::default" selected="true">None (Use default behavior)</option>
88 <option value="__q2galaxy__::control::provide">Provide a value</option> 88 <option value="__q2galaxy__::control::provide">Provide a value</option>
89 </param> 89 </param>
90 <when value="__q2galaxy__::control::default"> 90 <when value="__q2galaxy__::control::default">
91 <param name="prev_control_indicator" type="hidden" value="__q2galaxy__::literal::None"/> 91 <param name="prev_control_indicator" type="hidden" value="__q2galaxy__::literal::None"/>