<?xml version='1.0' encoding='utf-8'?>
<!--
Copyright (c) 2023, QIIME 2 development team.

Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
-->
<!--
This tool was automatically generated by:
    q2galaxy (version: 2022.11.1)
for:
    qiime2 (version: 2022.11.1)
-->
<tool name="qiime2 feature-classifier find-consensus-annotation" id="qiime2__feature_classifier__find_consensus_annotation" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause">
    <description>Find consensus among multiple annotations.</description>
    <requirements>
        <container type="docker">quay.io/qiime2/core:2022.11</container>
    </requirements>
    <version_command>q2galaxy version feature_classifier</version_command>
    <command detect_errors="exit_code">q2galaxy run feature_classifier find_consensus_annotation '$inputs'</command>
    <configfiles>
        <inputs name="inputs" data_style="paths"/>
    </configfiles>
    <inputs>
        <param name="search_results" type="data" format="qza" label="search_results: FeatureData[BLAST6]" help="[required]  Search results in BLAST6 output format">
            <options options_filter_attribute="metadata.semantic_type">
                <filter type="add_value" value="FeatureData[BLAST6]"/>
            </options>
            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[BLAST6]']</validator>
        </param>
        <param name="reference_taxonomy" type="data" format="qza" label="reference_taxonomy: FeatureData[Taxonomy]" help="[required]  reference taxonomy labels.">
            <options options_filter_attribute="metadata.semantic_type">
                <filter type="add_value" value="FeatureData[Taxonomy]"/>
            </options>
            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Taxonomy]']</validator>
        </param>
        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
            <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."/>
            <param name="unassignable_label" type="text" value="Unassigned" label="unassignable_label: Str" help="[default: 'Unassigned']  Annotation given when no consensus is found.">
                <sanitizer>
                    <valid initial="string.printable"/>
                </sanitizer>
            </param>
        </section>
    </inputs>
    <outputs>
        <data name="consensus_taxonomy" format="qza" label="${tool.name} on ${on_string}: consensus_taxonomy.qza" from_work_dir="consensus_taxonomy.qza"/>
    </outputs>
    <tests/>
    <help>
QIIME 2: feature-classifier find-consensus-annotation
=====================================================
Find consensus among multiple annotations.


Outputs:
--------
:consensus_taxonomy.qza: Consensus taxonomy and scores.

|  

Description:
------------
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.


|  

</help>
    <citations>
        <citation type="doi">10.1186/s40168-018-0470-z</citation>
        <citation type="doi">10.1038/s41587-019-0209-9</citation>
    </citations>
</tool>