--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/0.7.0/modules/top_unique_serovars/main.nf	Mon Jul 15 10:42:02 2024 -0400
@@ -0,0 +1,42 @@
+process TOP_UNIQUE_SEROVARS {
+    tag "$meta.id"
+    label "process_pico"
+
+    module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
+    conda (params.enable_conda ? "conda-forge::python=3.10.4" : null)
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'https://depot.galaxyproject.org/singularity/python:3.10.4' :
+        'quay.io/biocontainers/python:3.10.4' }"
+
+    input:
+        tuple val(meta), path(mash_screen_res)
+
+    output:
+        tuple val(meta), path('*_UNIQUE_HITS.txt')      , emit: tsv, optional: true
+        tuple val(meta), path('*_UNIQUE_HITS_POPUP.txt'), emit: popup, optional: true
+        tuple val(meta), path('*_UNIQUE_HITS_ACCS.txt') , emit: accessions, optional: true
+        tuple val(meta), path('*_UNIQUE_HITS.fna.gz')   , emit: genomes_fasta, optional: true
+        path'*FAILED.txt'                               , emit: failed, optional: true
+        path 'versions.yml'                             , emit: versions
+
+    when:
+        task.ext.when == null || task.ext.when
+
+    script:
+        def args = task.ext.args ?: ''
+        def prefix = task.ext.prefix ?: "${meta.id}"
+        args += (mash_screen_res ? " -m ${mash_screen_res}" : '')
+        args += (prefix ? " -op ${prefix}" : '')
+        """
+        get_top_unique_mash_hit_genomes.py \\
+            $args
+
+        cat <<-END_VERSIONS > versions.yml
+        "${task.process}":
+            python: \$( python --version | sed 's/Python //g' )
+            datasets: \$( datasets --version | sed 's/datasets version: //g' )
+            dataformat: \$( dataformat version )
+        END_VERSIONS
+        """
+
+}
\ No newline at end of file