<tool id="sanntis_marine" name="Sanntis biosynthetic gene clusters" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01" license="MIT">
    <description>in genomic and metagenomic data</description>
    <macros>
        <token name="@TOOL_VERSION@">0.9.3.5</token>
        <token name="@VERSION_SUFFIX@">0</token>
    </macros>
    <edam_topics>
        <edam_topic>topic_3387</edam_topic>
    </edam_topics>
    <requirements>
        <requirement type="package" version="@TOOL_VERSION@">sanntis</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        sanntis --ip-file '$input_interpro' --outfile 'output_sanntis.gff' '$input_genbank'
    ]]></command>
    <inputs>
        <param name="input_interpro" type="data" format="tabular" label="Input the TSV file from InterProScan" help="Before using this tool you need to retrieve the right data by using the InterProScan tool"/>
        <param name="input_genbank" type="data" format="genbank" label="Input a Genbank .gb file" help="It needs to have the right structure and fit the protein fasta file used in InterProScan"/>
    </inputs>
    <outputs>
        <data name="output_sanntis" from_work_dir="output_sanntis.gff" format="gff3" label="Sanntis output data"/>
    </outputs>
    <tests>
        <test expect_num_outputs="1">
            <param name="input_interpro" value="BGC0001472.fna.prodigal.faa.ip.tsv"/>
            <param name="input_genbank" value="BGC0001472.fna.prodigal.faa.gb"/>
            <output name="output_sanntis" value="Sanntis_output_data.gff3"/>
        </test>
    </tests>
    <help><![CDATA[

.. class:: infomark

**What it does**

SMBGC Annotation using Neural Networks Trained on Interpro Signatures
Tool for identifying biosynthetic gene clusters (BGCs) in genomic & metagenomic data

.....


**Input**
- A tsv file coming from InterProScan tool from which you can retrieve the right data.
- The right Genbank file with the right structure that fits the protein fasta file used to run InterProScan tool

**Output**
- A Gff3 file

    ]]></help>
    <citations>
        <citation type="doi">10.1101/2023.05.23.540769</citation>
    </citations>
</tool>