annotate qiime2__dada2__plot_base_transitions.xml @ 0:757ff40d49bf draft default tip

planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__dada2 commit 64ed09f1f1c680ad8373d261bd6be43a4f8a8d5b

<?xml version='1.0' encoding='utf-8'?>
<!--
Copyright (c) 2025, 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: 2025.10.0)
for:
    qiime2 (version: 2025.10.0)
-->
<tool name="qiime2 dada2 plot-base-transitions" id="qiime2__dada2__plot_base_transitions" version="2025.10.0+q2galaxy.2025.10.0" profile="22.05" license="BSD-3-Clause">
    <description>DADA2 diagnostic statistics</description>
    <xrefs>
        <xref type="bio.tools">qiime2</xref>
    </xrefs>
    <requirements>
        <container type="docker">quay.io/qiime2/amplicon:2025.10</container>
    </requirements>
    <version_command>q2galaxy version dada2</version_command>
    <command detect_errors="exit_code">q2galaxy run dada2 plot_base_transitions '$inputs'</command>
    <configfiles>
        <inputs name="inputs" data_style="staging_path_and_source_path"/>
    </configfiles>
    <inputs>
        <param name="base_transition_stats" type="data" format="qza" label="base_transition_stats: DADA2BaseTransitionStats" help="[required]  Dada2 Base transition statistics.">
            <options options_filter_attribute="metadata.semantic_type">
                <filter type="add_value" value="DADA2BaseTransitionStats"/>
            </options>
            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['DADA2BaseTransitionStats']</validator>
        </param>
        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
            <param name="nominalq" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="nominalq: Bool" help="[default: No]  Sets the nominalq line of the vizualization"/>
            <param name="error_in" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="error_in: Bool" help="[default: No]  Sets the input error line of the vizualization"/>
            <param name="error_out" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" checked="true" label="error_out: Bool" help="[default: Yes]  Sets the output error line of the vizualization"/>
        </section>
    </inputs>
    <outputs>
        <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/>
    </outputs>
    <tests/>
    <help>
QIIME 2: dada2 plot-base-transitions
====================================
DADA2 diagnostic statistics


Outputs:
--------
:visualization.qzv: &lt;no description&gt;

|  

Description:
------------
Generates dada2 output stat vizualizations


|  

</help>
    <citations>
        <citation type="doi">10.1038/nmeth.3869</citation>
        <citation type="doi">10.1038/s41587-019-0209-9</citation>
    </citations>
</tool>