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comparison qiime2__feature_classifier__find_consensus_annotation.xml @ 0:501989cbaea1 draft

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__feature_classifier commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1
author q2d2
date Mon, 29 Aug 2022 19:50:07 +0000
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1 <?xml version='1.0' encoding='utf-8'?>
2 <!--
3 Copyright (c) 2022, 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: 2022.8.1)
10 for:
11 qiime2 (version: 2022.8.1)
12 -->
13 <tool name="qiime2 feature-classifier find-consensus-annotation" id="qiime2__feature_classifier__find_consensus_annotation" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause">
14 <description>Find consensus among multiple annotations.</description>
15 <requirements>
16 <container type="docker">quay.io/qiime2/core:2022.8</container>
17 </requirements>
18 <version_command>q2galaxy version feature_classifier</version_command>
19 <command detect_errors="aggressive">q2galaxy run feature_classifier find_consensus_annotation '$inputs'</command>
20 <configfiles>
21 <inputs name="inputs" data_style="paths"/>
22 </configfiles>
23 <inputs>
24 <param name="search_results" type="data" format="qza" label="search_results: FeatureData[BLAST6]" help="[required] Search results in BLAST6 output format">
25 <options options_filter_attribute="metadata.semantic_type">
26 <filter type="add_value" value="FeatureData[BLAST6]"/>
27 </options>
28 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[BLAST6]']</validator>
29 </param>
30 <param name="reference_taxonomy" type="data" format="qza" label="reference_taxonomy: FeatureData[Taxonomy]" help="[required] reference taxonomy labels.">
31 <options options_filter_attribute="metadata.semantic_type">
32 <filter type="add_value" value="FeatureData[Taxonomy]"/>
33 </options>
34 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Taxonomy]']</validator>
35 </param>
36 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
37 <param name="min_consensus" type="float" min="0.500001" max="1.0" value="0.51" label="min_consensus: Float % Range(0.5, 1.0, inclusive_start=False, inclusive_end=True)" help="[default: 0.51] Minimum fraction of assignments must match top hit to be accepted as consensus assignment."/>
38 <param name="unassignable_label" type="text" value="Unassigned" label="unassignable_label: Str" help="[default: 'Unassigned'] Annotation given when no consensus is found.">
39 <sanitizer>
40 <valid initial="string.printable"/>
41 </sanitizer>
42 </param>
43 </section>
44 </inputs>
45 <outputs>
46 <data name="consensus_taxonomy" format="qza" label="${tool.name} on ${on_string}: consensus_taxonomy.qza" from_work_dir="consensus_taxonomy.qza"/>
47 </outputs>
48 <tests/>
49 <help>
50 QIIME 2: feature-classifier find-consensus-annotation
51 =====================================================
52 Find consensus among multiple annotations.
53
54
55 Outputs:
56 --------
57 :consensus_taxonomy.qza: Consensus taxonomy and scores.
58
59 |
60
61 Description:
62 ------------
63 Find consensus annotation for each query searched against a reference database, by finding the least common ancestor among one or more semicolon-delimited hierarchical annotations. Note that the annotation hierarchy is assumed to have an even number of ranks.
64
65
66 |
67
68 </help>
69 <citations>
70 <citation type="doi">10.1186/s40168-018-0470-z</citation>
71 <citation type="doi">10.1038/s41587-019-0209-9</citation>
72 </citations>
73 </tool>