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          --single_ok\n+        #end if\n+\n+        #if $methodcond.no_single_ok_generic:\n+            --no_single_ok_generic\n+        #end if\n+\n+        #if str($methodcond.read_id_regex):\n+            --read_id_regex=$methodcond.read_id_regex\n+        #end if\n+\n+        #if str($methodcond.amplicon_id_regex):\n+            --amplicon_id_regex=$methodcond.amplicon_id_regex\n+        #end if\n+\n+        #if str($methodcond.header_id_regex):\n+            --header_id_regex=$methodcond.header_id_regex\n+        #end if\n+    #end if\n+\n+    #if $methodcond.assignment_method == \"sortmerna\":\n+\n+        #if str($methodcond.sortmerna_db):\n+            --sortmerna_db=$methodcond.sortmerna_db\n+        #end if\n+\n+        #if $methodcond.sortmerna_e_value:\n+            --sortmerna_e_value=$methodcond.sortmerna_e_value\n+        #end if\n+\n+        #if $methodcond.sortmerna_coverage:\n+            --sortmerna_coverage=$methodcond.sortmerna_coverage\n+        #end if\n+\n+        #if $methodcond.sortmerna_best_N_alignments:\n+            --sortmerna_best_N_alignments=$methodcond.sortmerna_best_N_alignments\n+        #end if\n+\n+        #if str($methodcond.sortmerna_threads):\n+            --sortmerna_threads=$methodcond.sortmerna_threads\n+        #end if\n+\n+        #if $methodcond.min_consensus_fraction:\n+            --min_consensus_fraction=$methodcond.min_consensus_fraction\n+        #end if\n+\n+        #if $methodcond.similarity:\n+            --similarity=$methodcond.similarity\n+        #end if\n+    #end if\n+\n+    #if $methodcond.assignment_method == \"blast\":\n+\n+        #if str($methodcond.blast_db) != 'None':\n+            -b 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