#CONF FRAGMENTS_FILE LTQ_LOW_TRYP_fragments.txt
#CONF REGIONAL_FRAGMENT_SETS_FILE LTQ_LOW_TRYP_fragment_sets.txt
#CONF MASS_SPEC_TYPE 1(currently only option 1) 
#CONF DIGEST_TYPE 1 (0 - non specific, 1 - trypsin)
#CONF MAX_NUMBER_OF_PEAKS_PER_LOCAL_WINDOW 14
#CONF NUMBER_OF_STRONG_PEAKS_PER_LOCAL_WINDOW 10
#CONF LOCAL_WINDOW_SIZE 200
#CONF TOLERANCE 0.4
#CONF PM_TOLERANCE 2.5
#CONF MAX_EDGE_LENGTH 2
#CONF TERMINAL_SCORE 5
#CONF NEED_TO_CORRECT_PM 1 (0 - no, 1 - yes)
#CONF TRY_MULTIPLE_PMS 0 (0 - no, 1 - yes)
#CONF SIZE_THRESHOLDS 6 0 1 1243.8010 2 1534.6422 1991.2202 0 0 0 
#CONF REGION_THRESHOLDS 2 0.2250 0.7750
