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comparison qiime2__feature_table__merge.xml @ 1:bbef44c4221b 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 22:53:48 +0000
parents 6a753c135e34
children 4c2751c8cc0d
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0:6a753c135e34 1:bbef44c4221b
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 merge" id="qiime2__feature_table__merge" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 feature-table merge" id="qiime2__feature_table__merge" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause">
14 <description>Combine multiple tables</description> 14 <description>Combine multiple tables</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 merge '$inputs'</command> 19 <command detect_errors="exit_code">q2galaxy run feature_table merge '$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="tables" type="data" format="qza" label="tables: List[FeatureTable[Frequency]¹ | FeatureTable[RelativeFrequency]²]" help="[required] The collection of feature tables to be merged." multiple="true"> 24 <param name="tables" type="data" format="qza" label="tables: List[FeatureTable[Frequency]¹ | FeatureTable[RelativeFrequency]²]" help="[required] The collection of feature tables to be merged." multiple="true">
40 <data name="merged_table" format="qza" label="${tool.name} on ${on_string}: merged_table.qza" from_work_dir="merged_table.qza"/> 40 <data name="merged_table" format="qza" label="${tool.name} on ${on_string}: merged_table.qza" from_work_dir="merged_table.qza"/>
41 </outputs> 41 </outputs>
42 <tests> 42 <tests>
43 <test> 43 <test>
44 <param name="tables" value="merge.test0.feature-table1.qza,merge.test0.feature-table2.qza" ftype="qza"/> 44 <param name="tables" value="merge.test0.feature-table1.qza,merge.test0.feature-table2.qza" ftype="qza"/>
45 <output name="merged_table" ftype="qza"/> 45 <output name="merged_table" ftype="qza">
46 <assert_contents>
47 <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">
48 <has_line_matching expression="type: FeatureTable\[Frequency\]"/>
49 </has_archive_member>
50 </assert_contents>
51 </output>
46 </test> 52 </test>
47 <test> 53 <test>
48 <param name="tables" value="merge.test1.feature-table1.qza,merge.test1.feature-table2.qza,merge.test1.feature-table3.qza" ftype="qza"/> 54 <param name="tables" value="merge.test1.feature-table1.qza,merge.test1.feature-table2.qza,merge.test1.feature-table3.qza" ftype="qza"/>
49 <conditional name="__q2galaxy__GUI__conditional__overlap_method__"> 55 <conditional name="__q2galaxy__GUI__conditional__overlap_method__">
50 <param name="__q2galaxy__GUI__select__" value="sum"/> 56 <param name="__q2galaxy__GUI__select__" value="sum"/>
51 <param name="overlap_method" value="sum"/> 57 <param name="overlap_method" value="sum"/>
52 </conditional> 58 </conditional>
53 <output name="merged_table" ftype="qza"/> 59 <output name="merged_table" ftype="qza">
60 <assert_contents>
61 <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">
62 <has_line_matching expression="type: FeatureTable\[Frequency\]"/>
63 </has_archive_member>
64 </assert_contents>
65 </output>
54 </test> 66 </test>
55 </tests> 67 </tests>
56 <help> 68 <help>
57 QIIME 2: feature-table merge 69 QIIME 2: feature-table merge
58 ============================ 70 ============================
70 Combines feature tables using the `overlap_method` provided. 82 Combines feature tables using the `overlap_method` provided.
71 83
72 Examples: 84 Examples:
73 --------- 85 ---------
74 86
75 basic 87 feature_table_merge_two_tables
76 ***** 88 ******************************
77 Using the ``qiime2 feature-table merge`` tool: 89 Using the ``qiime2 feature-table merge`` tool:
78 #. For *"tables"*, use ctrl-(or command)-click to select the following inputs: 90 #. For *"tables"*, use ctrl-(or command)-click to select the following inputs:
79 91
80 #. ``#: feature-table1.qza`` 92 #. ``#: feature-table1.qza``
81 #. ``#: feature-table2.qza`` 93 #. ``#: feature-table2.qza``
82 94
83 #. Press the ``Execute`` button. 95 #. Press the ``Execute`` button.
84 96
85 97
86 three_tables 98 feature_table_merge_three_tables
87 ************ 99 ********************************
88 Using the ``qiime2 feature-table merge`` tool: 100 Using the ``qiime2 feature-table merge`` tool:
89 #. For *"tables"*, use ctrl-(or command)-click to select the following inputs: 101 #. For *"tables"*, use ctrl-(or command)-click to select the following inputs:
90 102
91 #. ``#: feature-table1.qza`` 103 #. ``#: feature-table1.qza``
92 #. ``#: feature-table2.qza`` 104 #. ``#: feature-table2.qza``