/test-data/picard_MD_output3.txt

  1## net.sf.picard.metrics.StringHeader
  2# net.sf.picard.sam.MarkDuplicates INPUT=picard_input_tiny_coord.sam OUTPUT=picard_MD_output4_.sam METRICS_FILE=picard_MD_output3_.txt REMOVE_DUPLICATES=true ASSUME_SORTED=false READ_NAME_REGEX=[a-zA-Z0-9]+:[0-9]:([0-9]+):([0-9]+):([0-9]+).* OPTICAL_DUPLICATE_PIXEL_DISTANCE=100 VALIDATION_STRINGENCY=LENIENT    MAX_SEQUENCES_FOR_DISK_READ_ENDS_MAP=50000 MAX_FILE_HANDLES_FOR_READ_ENDS_MAP=8000 TMP_DIR=/tmp/kpvincent VERBOSITY=INFO QUIET=false COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false
  3## net.sf.picard.metrics.StringHeader
  4# Started on: Tue Apr 19 15:32:38 EDT 2011
  5
  6## METRICS CLASS	net.sf.picard.sam.DuplicationMetrics
  7LIBRARY	UNPAIRED_READS_EXAMINED	READ_PAIRS_EXAMINED	UNMAPPED_READS	UNPAIRED_READ_DUPLICATES	READ_PAIR_DUPLICATES	READ_PAIR_OPTICAL_DUPLICATES	PERCENT_DUPLICATION	ESTIMATED_LIBRARY_SIZE
  8	1	3	1	1	1	0	0.428571	3
  9
 10## HISTOGRAM	java.lang.Double
 11BIN	VALUE
 121.0	0.948181
 132.0	1.296997
 143.0	1.425319
 154.0	1.472527
 165.0	1.489893
 176.0	1.496282
 187.0	1.498632
 198.0	1.499497
 209.0	1.499815
 2110.0	1.499932
 2211.0	1.499975
 2312.0	1.499991
 2413.0	1.499997
 2514.0	1.499999
 2615.0	1.5
 2716.0	1.5
 2817.0	1.5
 2918.0	1.5
 3019.0	1.5
 3120.0	1.5
 3221.0	1.5
 3322.0	1.5
 3423.0	1.5
 3524.0	1.5
 3625.0	1.5
 3726.0	1.5
 3827.0	1.5
 3928.0	1.5
 4029.0	1.5
 4130.0	1.5
 4231.0	1.5
 4332.0	1.5
 4433.0	1.5
 4534.0	1.5
 4635.0	1.5
 4736.0	1.5
 4837.0	1.5
 4938.0	1.5
 5039.0	1.5
 5140.0	1.5
 5241.0	1.5
 5342.0	1.5
 5443.0	1.5
 5544.0	1.5
 5645.0	1.5
 5746.0	1.5
 5847.0	1.5
 5948.0	1.5
 6049.0	1.5
 6150.0	1.5
 6251.0	1.5
 6352.0	1.5
 6453.0	1.5
 6554.0	1.5
 6655.0	1.5
 6756.0	1.5
 6857.0	1.5
 6958.0	1.5
 7059.0	1.5
 7160.0	1.5
 7261.0	1.5
 7362.0	1.5
 7463.0	1.5
 7564.0	1.5
 7665.0	1.5
 7766.0	1.5
 7867.0	1.5
 7968.0	1.5
 8069.0	1.5
 8170.0	1.5
 8271.0	1.5
 8372.0	1.5
 8473.0	1.5
 8574.0	1.5
 8675.0	1.5
 8776.0	1.5
 8877.0	1.5
 8978.0	1.5
 9079.0	1.5
 9180.0	1.5
 9281.0	1.5
 9382.0	1.5
 9483.0	1.5
 9584.0	1.5
 9685.0	1.5
 9786.0	1.5
 9887.0	1.5
 9988.0	1.5
10089.0	1.5
10190.0	1.5
10291.0	1.5
10392.0	1.5
10493.0	1.5
10594.0	1.5
10695.0	1.5
10796.0	1.5
10897.0	1.5
10998.0	1.5
11099.0	1.5
111100.0	1.5
112