fix aligner argument input

databio · Aug 11, 2020 · d82569e · d82569e
1 parent 23105ca
commit d82569e
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/sample_pipeline_interface.yaml b/sample_pipeline_interface.yaml
@@ -15,7 +15,7 @@ command_template: >
   {% if sample.read2 is defined %} --input2 {sample.read2} {% endif %}
   {% if sample.peak_caller is defined %} --peak-caller {sample.peak_caller} {% endif %}
   {% if sample.macs_genome_size is defined %} --genome-size {sample.macs_genome_size} {% endif %}
-  {% if sample.aligner is defined %} --aligner {sample.trimmer} {% endif %}
+  {% if sample.aligner is defined %} --aligner {sample.aligner} {% endif %}
   {% if sample.trimmer is defined %} --trimmer {sample.trimmer} {% endif %}
   {% if sample.prealignments is defined %} --prealignments {sample.prealignments} {% endif %}
   {% if sample.deduplicator is defined %} --deduplicator {sample.deduplicator} {% endif %}