Added "run_similarity_scoring" (defaults to '1' for the time being).

This is an option for turning on or off exonerate.  You might want to do
this if the assembly hasn't changed.

misc-scripts/id_mapping/default.conf

@@ -48,7 +48,8 @@ lsf_opt_run_small           = "-q small"
 lsf_opt_run                 = "-We 90 -M15000000 -R'select[linux && lustre && mem>15000],rusage[mem=15000]'"
 lsf_opt_dump_cache          = "-We 5 -M5000000 -R'select[linux && lustre && mem>5000],rusage[mem=5000]'"
 
-;; ScoreBuilder
+;; Exonerate
+run_similarity_scoring      = 1
 min_exon_length             = 15
 exonerate_path              = /usr/local/ensembl/bin/exonerate-0.8.2
 exonerate_bytes_per_job     = 250000