reivse input boolean type

inputs

     "{{ project_name }}.count_docker": "{{ count_docker }}",
     "{{ project_name }}.count_cluster": "{{ count_cluster }}",
     "{{ project_name }}.count_length": "{{ count_length }}",
-    "{{ project_name }}.trim_adapter": TRUE,
-    "{{ project_name }}.pre_alignment_qc": TRUE,
-    "{{ project_name }}.qualimap_qc": TRUE
+    "{{ project_name }}.trim_adapter":  {{ boolean(trim_adapter) }},,
+    "{{ project_name }}.pre_alignment_qc": {{ boolean(pre_alignment_qc) }},
+    "{{ project_name }}.qualimap_qc": {{ boolean(qualimap_qc) }}
 }