Info:    Log File: wig/BMDM_GSM538019_H3K4me1_ChIP-seq_mm9_ht3_q10.log
Info:     * Output directory     : wig/
Info:     * Naming files as      : BMDM_GSM538019_H3K4me1_ChIP-seq_mm9_ht3_q10
Info:     * MC simulation        : Off
Info:     * Chr name prepend     : none
Info:     * Min. reported pk ht  : 5
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              : interval
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:     * Wig File Headers     : On
Info:     * Min readahead window : Off
Info:     * Bedgraph/Wigfile     : wig file
Info:     * R mode               : Off
Info:     * Filter Duplicates    : On
Info:     * Filter quality min.  : On (10)
Info:     * Input Files          : 
Info:          out/chr10.part.interval.gz
Info:          out/chr11.part.interval.gz
Info:          out/chr12.part.interval.gz
Info:          out/chr13.part.interval.gz
Info:          out/chr14.part.interval.gz
Info:          out/chr15.part.interval.gz
Info:          out/chr16.part.interval.gz
Info:          out/chr17.part.interval.gz
Info:          out/chr18.part.interval.gz
Info:          out/chr19.part.interval.gz
Info:          out/chr1.part.interval.gz
Info:          out/chr2.part.interval.gz
Info:          out/chr3.part.interval.gz
Info:          out/chr4.part.interval.gz
Info:          out/chr5.part.interval.gz
Info:          out/chr6.part.interval.gz
Info:          out/chr7.part.interval.gz
Info:          out/chr8.part.interval.gz
Info:          out/chr9.part.interval.gz
Info:          out/chrM.part.interval.gz
Info:          out/chrX.part.interval.gz
Info:          out/chrY.part.interval.gz
Version: Initializing class PeakWriter                        $Revision: 2532 $
Info:    Running Peak Processor
Version: Initializing class Generic_AlignRead_Iterator        $Revision: 3118 $
Version: Initializing class BedIterator                       $Revision: 2933 $
Version: Initializing class PeakDataSet Peak Locator          $Revision: 2785 $
Version: Initializing class PeakStore                         $Revision: 2739 $
Version: Initializing class MapStore                          $Revision: 2738 $
Info:    Current chromosome : chr10
Info:    Reads used: 694196
Info:    Reads filtered by duplicate: 17828
Version: Initializing class PeakStats                         $Revision: 2532 $
Version: Initializing class Histogram                         $Revision: 2530 $
Version: Initializing class WigwriterBuffered                 $Revision: 2530 $
Info:    writing to : wig/BMDM_GSM538019_H3K4me1_ChIP-seq_mm9_ht3_q10_triangle_standard_chr10.wig.gz
Info:    Running Peak Processor
Info:    Current chromosome : chr11
Info:    Reads used: 866091
Info:    Reads filtered by duplicate: 24025
Info:    Running Peak Processor
Info:    Current chromosome : chr12
Info:    Reads used: 523838
Info:    Reads filtered by duplicate: 16858
Info:    Running Peak Processor
Info:    Current chromosome : chr13
Info:    Reads used: 586068
Info:    Reads filtered by duplicate: 18211
Info:    Running Peak Processor
Info:    Current chromosome : chr14
Info:    Reads used: 518688
Info:    Reads filtered by duplicate: 13045
Info:    Running Peak Processor
Info:    Current chromosome : chr15
Info:    Reads used: 539242
Info:    Reads filtered by duplicate: 14414
Info:    Running Peak Processor
Info:    Current chromosome : chr16
Info:    Reads used: 465347
Info:    Reads filtered by duplicate: 11958
Info:    Running Peak Processor
Info:    Current chromosome : chr17
Info:    Reads used: 525002
Info:    Reads filtered by duplicate: 13652
Info:    Running Peak Processor
Info:    Current chromosome : chr18
Info:    Reads used: 378696
Info:    Reads filtered by duplicate: 9032
Info:    Running Peak Processor
Info:    Current chromosome : chr19
Info:    Reads used: 392274
Info:    Reads filtered by duplicate: 10859
Info:    Running Peak Processor
Info:    Current chromosome : chr1
Info:    Reads used: 891682
Info:    Reads filtered by duplicate: 22790
Info:    Running Peak Processor
Info:    Current chromosome : chr2
Info:    Reads used: 1020164
Info:    Reads filtered by duplicate: 145302
Info:    Running Peak Processor
Info:    Current chromosome : chr3
Info:    Reads used: 664788
Info:    Reads filtered by duplicate: 16289
Info:    Running Peak Processor
Info:    Current chromosome : chr4
Info:    Reads used: 754437
Info:    Reads filtered by duplicate: 19916
Info:    Running Peak Processor
Info:    Current chromosome : chr5
Info:    Reads used: 754149
Info:    Reads filtered by duplicate: 19079
Info:    Running Peak Processor
Info:    Current chromosome : chr6
Info:    Reads used: 704084
Info:    Reads filtered by duplicate: 19876
Info:    Running Peak Processor
Info:    Current chromosome : chr7
Info:    Reads used: 733279
Info:    Reads filtered by duplicate: 19224
Info:    Running Peak Processor
Info:    Current chromosome : chr8
Info:    Reads used: 612775
Info:    Reads filtered by duplicate: 15815
Info:    Running Peak Processor
Info:    Current chromosome : chr9
Info:    Reads used: 693419
Info:    Reads filtered by duplicate: 207016
Info:    Running Peak Processor
Info:    Current chromosome : chrM
Info:    Reads used: 87
Info:    Running Peak Processor
Info:    Current chromosome : chrX
Info:    Reads used: 292949
Info:    Reads filtered by duplicate: 6268
Info:    Running Peak Processor
Info:    Current chromosome : chrY
Info:    Reads used: 7422
Info:    Reads filtered by duplicate: 437
Info:    Wrote to:wig/BMDM_GSM538019_H3K4me1_ChIP-seq_mm9_ht3_q10_triangle_standard.wig.gz