Info:    Log File: /projects/remc_bigdata/MORGEN/MM0559_Smad3-5Lanes/MM0559-5Lanes_dupsFlagged_ht3.log
Info:     * Output directory     : /projects/remc_bigdata/MORGEN/MM0559_Smad3-5Lanes/
Info:     * Naming files as      : MM0559-5Lanes_dupsFlagged_ht3
Info:     * MC simulation        : Off
Info:     * Chr name prepend     : chr
Info:     * Min. reported pk ht  : 3
Info:     * Min. cov. allowed    : 0.0010
Info:     * Minimum ht to process: Off
Info:     * Lander-Waterman FDR  : Off
Info:     * Output Sequence      : Off
Info:     * Control files in use : Off
Info:     * Compare files in use : Off
Info:     * Auto-threshold       : Off
Info:     * Filter on PET flags  : Off
Info:     * Maximum PET frag size: Off
Info:     * Aligner              : sam
Info:     * Triangle dist.       : 100 low
Info:     * Triangle dist.       : 200 median
Info:     * Triangle dist.       : 300 high
Info:     * One file per chr.    : Off
Info:     * Sub-peaks            : Off
Info:     * Trim                 : Off
Info:     * Saturation Analysis  : Off
Info:     * Wig step size        : 1
Info:     * Histogram length     : 30
Info:     * Histogram precision  : 1
Info:     * Peaks File Header    : On
Info:     * Min readahead window : Off
Info:     * Bedgraph/Wigfile     : wig file
Info:     * R mode               : Off
Info:     * Filter Duplicates    : On
Info:     * Filter quality       : Off
Info:     * Input Files          : 
Info:          /projects/analysis/analysis5/MM0559/meta_bwa/MM0559_5_lanes_dupsFlagged.bam
Version: Initializing class PeakWriter                        $Revision: 1498 $
Version: Initializing class Generic_AlignRead_Iterator        $Revision: 1600 $
Version: Initializing class SAMIterator                       $Revision: 936 $
Info:    Running Peak Processor
Version: Initializing class PeakDataSet Peak Locator          $Revision: 2226 $
Version: Initializing class PeakStore                         $Revision: 1335 $
Version: Initializing class MapStore                          $Revision: 1335 $
Info:    Current chromosome : chr1
Info:    Reads used: 4923370
Info:    Reads filtered by duplicate: 3305225
Info:    Reads filtered by iterator: 14993
Version: Initializing class PeakStats                         $Revision: 1335 $
Version: Initializing class Histogram                         $Revision: 1197 $
Version: Initializing class WigwriterBuffered                 $Revision: 2195 $
Info:    writing to : /projects/remc_bigdata/MORGEN/MM0559_Smad3-5Lanes/MM0559-5Lanes_dupsFlagged_ht3_triangle_standard_chr1.wig.gz
Info:    Running Peak Processor
Info:    Current chromosome : chr10
Info:    Reads used: 3233193
Info:    Reads filtered by duplicate: 2177082
Info:    Reads filtered by iterator: 24426
Info:    Running Peak Processor
Info:    Current chromosome : chr11
Info:    Reads used: 2927690
Info:    Reads filtered by duplicate: 1975091
Info:    Reads filtered by iterator: 36325
Info:    Running Peak Processor
Info:    Current chromosome : chr12
Info:    Reads used: 2923836
Info:    Reads filtered by duplicate: 2084868
Info:    Reads filtered by iterator: 49323
Info:    Running Peak Processor
Info:    Current chromosome : chr13
Info:    Reads used: 2983729
Info:    Reads filtered by duplicate: 2117339
Info:    Reads filtered by iterator: 60949
Info:    Running Peak Processor
Info:    Current chromosome : chr14
Info:    Reads used: 3150277
Info:    Reads filtered by duplicate: 1992116
Info:    Reads filtered by iterator: 69173
Info:    Running Peak Processor
Info:    Current chromosome : chr15
Info:    Reads used: 2469458
Info:    Reads filtered by duplicate: 1654461
Info:    Reads filtered by iterator: 76960
Info:    Running Peak Processor
Info:    Current chromosome : chr16
Info:    Reads used: 2401926
Info:    Reads filtered by duplicate: 1634936
Info:    Reads filtered by iterator: 84578
Info:    Running Peak Processor
Info:    Current chromosome : chr17
Info:    Reads used: 2276508
Info:    Reads filtered by duplicate: 1500430
Info:    Reads filtered by iterator: 92346
Info:    Running Peak Processor
Info:    Current chromosome : chr18
Info:    Reads used: 2218530
Info:    Reads filtered by duplicate: 1509616
Info:    Reads filtered by iterator: 99159
Info:    Running Peak Processor
Info:    Current chromosome : chr19
Info:    Reads used: 1412241
Info:    Reads filtered by duplicate: 950622
Info:    Reads filtered by iterator: 103831
Info:    Running Peak Processor
Info:    Current chromosome : chr2
Info:    Reads used: 4474837
Info:    Reads filtered by duplicate: 7174207
Info:    Reads filtered by iterator: 237860
Info:    Running Peak Processor
Info:    Current chromosome : chr3
Info:    Reads used: 4071539
Info:    Reads filtered by duplicate: 2730568
Info:    Reads filtered by iterator: 249479
Info:    Running Peak Processor
Info:    Current chromosome : chr4
Info:    Reads used: 3891500
Info:    Reads filtered by duplicate: 2506418
Info:    Reads filtered by iterator: 262668
Info:    Running Peak Processor
Info:    Current chromosome : chr5
Info:    Reads used: 3719064
Info:    Reads filtered by duplicate: 2392607
Info:    Reads filtered by iterator: 274553
Info:    Running Peak Processor
Info:    Current chromosome : chr6
Info:    Reads used: 3711418
Info:    Reads filtered by duplicate: 2645209
Info:    Reads filtered by iterator: 288609
Info:    Running Peak Processor
Info:    Current chromosome : chr7
Info:    Reads used: 3499294
Info:    Reads filtered by duplicate: 2123765
Info:    Reads filtered by iterator: 298213
Info:    Running Peak Processor
Info:    Current chromosome : chr8
Info:    Reads used: 3147161
Info:    Reads filtered by duplicate: 2080440
Info:    Reads filtered by iterator: 308306
Info:    Running Peak Processor
Info:    Current chromosome : chr9
Info:    Reads used: 3037517
Info:    Reads filtered by duplicate: 9725816
Info:    Reads filtered by iterator: 552945
Info:    Running Peak Processor
Info:    Current chromosome : chrMT
Info:    Reads used: 22480
Info:    Reads filtered by duplicate: 69756
Info:    Reads filtered by iterator: 553105
Info:    Running Peak Processor
Info:    Current chromosome : chrX
Info:    Reads used: 3470069
Info:    Reads filtered by duplicate: 1940321
Info:    Reads filtered by iterator: 570429
Info:    Running Peak Processor
Info:    Current chromosome : chrY
Info:    Reads used: 81967
Info:    Reads filtered by duplicate: 80212
Info:    Reads filtered by iterator: 33784421
Info:    Wrote to:/projects/remc_bigdata/MORGEN/MM0559_Smad3-5Lanes/MM0559-5Lanes_dupsFlagged_ht3_triangle_standard.wig.gz