--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/0.5.0/modules/bcs_distance_matrix/main.nf	Mon Jun 05 18:48:51 2023 -0400
@@ -0,0 +1,45 @@
+process BCS_DISTANCE_MATRIX {
+    tag "Samples vs Genomes"
+    label "process_pico"
+
+    module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
+    conda (params.enable_conda ? "conda-forge::python=3.10 conda-forge::pyyaml" : null)
+    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
+        'https://depot.galaxyproject.org/singularity/multiqc:1.13--pyhdfd78af_0' :
+        'quay.io/biocontainers/multiqc:1.13--pyhdfd78af_0' }"
+
+    input:
+        path matrix
+        path labels
+
+    output:
+        path 'bcs_sourmash_matrix.tblsum.txt', emit: mqc_txt, optional: true
+        path 'bcs_sourmash_matrix_mqc.json'  , emit: mqc_json, optional: true
+        path 'bcs_sourmash_matrix_mqc.yml'   , emit: mqc_yml, optional: true
+        path 'versions.yml'                  , emit: versions
+
+    when:
+        task.ext.when == null || task.ext.when
+
+    script:
+        def args = task.ext.args ?: ''
+
+        """
+        sourmash_sim_matrix.py \\
+            -pickle ${params.tuspy_ps} \\
+            -csv $matrix \\
+            -labels $labels
+
+        if [ -e "bcs_sourmash_matrix.tblsum.txt" ] && [ -s "bcs_sourmash_matrix.tblsum.txt" ]; then
+            create_mqc_data_table.py \\
+                "bcs_sourmash_matrix" \\
+                "The following table is an asymmetrical matrix of all <code>v.</code> all <b>ANI</b> values between each of the sample <b>FASTQ</b>'s sketch and genome <b>FASTA</b>'s sketch. Please note that there may be multiple genomes belonging to a serotype as processed by the initial screening steps of the workflow."
+        fi
+
+        cat <<-END_VERSIONS > versions.yml
+        "${task.process}":
+            python: \$( python --version | sed 's/Python //g' )
+            bash: \$( bash --version 2>&1 | sed '1!d; s/^.*version //; s/ (.*\$//' )
+        END_VERSIONS
+        """
+}
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