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comparison qiime2__feature_table__filter_features.xml @ 1:a63fa31b8367 draft

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__feature_table commit 69da7976573cc07a363ac66bdacc9269d7cd3732
author q2d2
date Fri, 13 Jan 2023 22:54:03 +0000
parents 5585d004e609
children b2df7f8e4a07
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0:5585d004e609 1:a63fa31b8367
1 <?xml version='1.0' encoding='utf-8'?> 1 <?xml version='1.0' encoding='utf-8'?>
2 <!-- 2 <!--
3 Copyright (c) 2022, QIIME 2 development team. 3 Copyright (c) 2023, 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: 2022.8.1) 9 q2galaxy (version: 2022.11.1)
10 for: 10 for:
11 qiime2 (version: 2022.8.1) 11 qiime2 (version: 2022.11.1)
12 --> 12 -->
13 <tool name="qiime2 feature-table filter-features" id="qiime2__feature_table__filter_features" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 feature-table filter-features" id="qiime2__feature_table__filter_features" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause">
14 <description>Filter features from table</description> 14 <description>Filter features from table</description>
15 <requirements> 15 <requirements>
16 <container type="docker">quay.io/qiime2/core:2022.8</container> 16 <container type="docker">quay.io/qiime2/core:2022.11</container>
17 </requirements> 17 </requirements>
18 <version_command>q2galaxy version feature_table</version_command> 18 <version_command>q2galaxy version feature_table</version_command>
19 <command detect_errors="aggressive">q2galaxy run feature_table filter_features '$inputs'</command> 19 <command detect_errors="exit_code">q2galaxy run feature_table filter_features '$inputs'</command>
20 <configfiles> 20 <configfiles>
21 <inputs name="inputs" data_style="paths"/> 21 <inputs name="inputs" data_style="paths"/>
22 </configfiles> 22 </configfiles>
23 <inputs> 23 <inputs>
24 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency]" help="[required] The feature table from which features should be filtered."> 24 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency]" help="[required] The feature table from which features should be filtered.">
67 </section> 67 </section>
68 </inputs> 68 </inputs>
69 <outputs> 69 <outputs>
70 <data name="filtered_table" format="qza" label="${tool.name} on ${on_string}: filtered_table.qza" from_work_dir="filtered_table.qza"/> 70 <data name="filtered_table" format="qza" label="${tool.name} on ${on_string}: filtered_table.qza" from_work_dir="filtered_table.qza"/>
71 </outputs> 71 </outputs>
72 <tests/> 72 <tests>
73 <test>
74 <param name="table" value="filter_features.test0.feature-table.qza" ftype="qza"/>
75 <param name="min_samples" value="2"/>
76 <output name="filtered_table" ftype="qza">
77 <assert_contents>
78 <has_archive_member path="[0-9a-f]{8}-[0-9a-f]{4}-[4][0-9a-f]{3}-[89ab][0-9a-f]{3}-[0-9a-f]{12}\/metadata.yaml">
79 <has_line_matching expression="type: FeatureTable\[Frequency\]"/>
80 </has_archive_member>
81 </assert_contents>
82 </output>
83 </test>
84 </tests>
73 <help> 85 <help>
74 QIIME 2: feature-table filter-features 86 QIIME 2: feature-table filter-features
75 ====================================== 87 ======================================
76 Filter features from table 88 Filter features from table
77 89
84 96
85 Description: 97 Description:
86 ------------ 98 ------------
87 Filter features from table based on frequency and/or metadata. Any samples with a frequency of zero after feature filtering will also be removed. See the filtering tutorial on https://docs.qiime2.org for additional details. 99 Filter features from table based on frequency and/or metadata. Any samples with a frequency of zero after feature filtering will also be removed. See the filtering tutorial on https://docs.qiime2.org for additional details.
88 100
101 Examples:
102 ---------
103
104 filter_features_min_samples
105 ***************************
106 Using the ``qiime2 feature-table filter-features`` tool:
107 #. Set *"table"* to ``#: feature-table.qza``
108 #. Expand the ``additional options`` section
109
110 - Set *"min_samples"* to ``2``
111
112 #. Press the ``Execute`` button.
113
114
89 115
90 | 116 |
91 117
92 </help> 118 </help>
93 <citations> 119 <citations>