Fix typo in variable name in CHECKM/QA (plus some formatting fixes)

modules/nf-core/checkm/qa/main.nf

@@ -1,11 +1,10 @@
 process CHECKM_QA {
-    tag "$meta.id"
+    tag "${meta.id}"
     label 'process_low'
-
     conda "${moduleDir}/environment.yml"
-    container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0' :
-        'biocontainers/checkm-genome:1.2.2--pyhdfd78af_0' }"
+    container "${workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container
+        ? 'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0'
+        : 'biocontainers/checkm-genome:1.2.2--pyhdfd78af_0'}"
 
     input:
     tuple val(meta), path(analysis_dir), path(marker_file), path(coverage_file)
@@ -14,27 +13,27 @@ process CHECKM_QA {
     output:
     tuple val(meta), path("${prefix}.txt")  , optional: true, emit: output
     tuple val(meta), path("${prefix}.fasta"), optional: true, emit: fasta
-    path "versions.yml" , emit: versions
+    path "versions.yml", emit: versions
 
     when:
     task.ext.when == null || task.ext.when
 
     script:
-    def args     = task.ext.args ?: ''
-    prefix       = task.ext.prefix ?: "${meta.id}"
-    suffix       = task.ext.args?.matches(".*-o 9.*|.*--out_file 9.*") ? "fasta" : "txt"
-    def coverage = coverage_file                                   ? "--coverage_file ${coverage_file}"  : ""
-    def exclude  = exclude_marker_file                             ? "--exclude_markers ${marker_filer}" : ""
+    def args = task.ext.args ?: ''
+    prefix = task.ext.prefix ?: "${meta.id}"
+    suffix = task.ext.args.matches(".*-o 9.*|.*--out_file 9.*") ? "fasta" : "txt"
+    def coverage = coverage_file                                ? "--coverage_file ${coverage_file}" : ""
+    def exclude = exclude_marker_file                           ? "--exclude_markers ${marker_file}" : ""
     """
     checkm \\
         qa \\
         --threads ${task.cpus} \\
         --file ${prefix}.${suffix} \\
-        $marker_file \\
-        $analysis_dir \\
-        $coverage \\
-        $exclude \\
-        $args
+        ${marker_file} \\
+        ${analysis_dir} \\
+        ${coverage} \\
+        ${exclude} \\
+        ${args}
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":