Add emmtyper module

nextflow-modules/modules/emmtyper/main.nf

@@ -0,0 +1,38 @@
+process emmtyper {
+  tag "${sampleID}"
+  scratch params.scratch
+
+  input:
+    tuple val(sampleID), path(fasta)
+
+  output:
+    tuple val(sampleID), path(output), emit: txt
+    path "*versions.yml"             , emit: versions
+
+  script:
+    def args = task.ext.args ?: ''
+    output = "${sampleID}_emmtyper.txt"
+    """
+    emmtyper ${args} --outout ${output} ${fasta}
+
+    cat <<-END_VERSIONS > ${sampleID}_${task.process}_versions.yml
+    ${task.process}:
+     emmtyper:
+      version: \$(echo \$(emmtyper --version 2>&1) | sed -r 's/^.*emmtyper // ; s/ .*//')
+      container: ${task.container}
+    END_VERSIONS
+    """
+
+  stub:
+    output = "${sampleID}_emmtyper.txt"
+    """
+    touch $output
+
+    cat <<-END_VERSIONS > ${sampleID}_${task.process}_versions.yml
+    ${task.process}:
+     emmtyper:
+      version: \$(echo \$(emmtyper --version 2>&1) | sed -r 's/^.*emmtyper // ; s/ .*//')
+      container: ${task.container}
+    END_VERSIONS
+    """
+}