Mercurial > repos > q2d2 > qiime2__diversity__alpha_phylogenetic

comparison qiime2__diversity__alpha_phylogenetic.xml @ 6:ee712ca8cac8 draft default tip

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity commit b1fccfb38b4873cd4699743033449014a2978e7d
author q2d2
date Mon, 05 May 2025 18:44:22 +0000
parents 5c0e7186a169
children
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5:5c0e7186a169 6:ee712ca8cac8
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 diversity alpha-phylogenetic" id="qiime2__diversity__alpha_phylogenetic" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 diversity alpha-phylogenetic" id="qiime2__diversity__alpha_phylogenetic" version="2025.4.0+q2galaxy.2025.4.0" profile="22.05" license="BSD-3-Clause">
14 <description>Alpha diversity (phylogenetic)</description> 14 <description>Alpha diversity (phylogenetic)</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 diversity</version_command> 21 <version_command>q2galaxy version diversity</version_command>
22 <command detect_errors="exit_code">q2galaxy run diversity alpha_phylogenetic '$inputs'</command> 22 <command detect_errors="exit_code">q2galaxy run diversity alpha_phylogenetic '$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"/>
25 </configfiles> 25 </configfiles>
26 <inputs> 26 <inputs>
27 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency | RelativeFrequency | PresenceAbsence]" help="[required] The feature table containing the samples for which alpha diversity should be computed."> 27 <param name="table" type="data" format="qza" label="table: FeatureTable[Frequency | RelativeFrequency | PresenceAbsence]" help="[required] The feature table containing the samples for which alpha diversity should be computed.">
28 <options options_filter_attribute="metadata.semantic_type"> 28 <options options_filter_attribute="metadata.semantic_type">
29 <filter type="add_value" value="FeatureTable[Frequency]"/>
30 <filter type="add_value" value="FeatureTable[PresenceAbsence]"/> 29 <filter type="add_value" value="FeatureTable[PresenceAbsence]"/>
31 <filter type="add_value" value="FeatureTable[RelativeFrequency]"/> 30 <filter type="add_value" value="FeatureTable[RelativeFrequency]"/>
31 <filter type="add_value" value="FeatureTable[Frequency]"/>
32 </options> 32 </options>
33 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]', 'FeatureTable[PresenceAbsence]', 'FeatureTable[RelativeFrequency]']</validator> 33 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[Frequency]', 'FeatureTable[PresenceAbsence]', 'FeatureTable[RelativeFrequency]']</validator>
34 </param> 34 </param>
35 <param name="phylogeny" type="data" format="qza" label="phylogeny: Phylogeny[Rooted]" help="[required] Phylogenetic tree containing tip identifiers that correspond to the feature identifiers in the table. This tree can contain tip ids that are not present in the table, but all feature ids in the table must be present in this tree."> 35 <param name="phylogeny" type="data" format="qza" label="phylogeny: Phylogeny[Rooted]" help="[required] Phylogenetic tree containing tip identifiers that correspond to the feature identifiers in the table. This tree can contain tip ids that are not present in the table, but all feature ids in the table must be present in this tree.">
36 <options options_filter_attribute="metadata.semantic_type"> 36 <options options_filter_attribute="metadata.semantic_type">