Version: Initializing class Log_Buffer                        $Revision: 2530 $
Version: Vancouver Short Read Analysis Package                4.0.16-dev.interval
Version: Initializing class FindPeaks                         $Revision: 3126 $
Version: Initializing class Parameters                        $Revision: 3117 $
Info:    Log File: wig/3T3L1_t1_GSM535743_H3K4me1_ChIP-seq.mm9_ht3_q10.log
Info:     * Output directory     : wig/
Info:     * Naming files as      : 3T3L1_t1_GSM535743_H3K4me1_ChIP-seq.mm9_ht3_q10
Info:     * MC simulation        : Off
Info:     * Chr name prepend     : none
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              : 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/chrX.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: 362680
Info:    Reads filtered by duplicate: 7518
Version: Initializing class PeakStats                         $Revision: 2532 $
Version: Initializing class Histogram                         $Revision: 2530 $
Version: Initializing class WigwriterBuffered                 $Revision: 2530 $
Info:    writing to : wig/3T3L1_t1_GSM535743_H3K4me1_ChIP-seq.mm9_ht3_q10_triangle_standard_chr10.wig.gz
Info:    Running Peak Processor
Info:    Current chromosome : chr11
Info:    Reads used: 388670
Info:    Reads filtered by duplicate: 5567
Info:    Running Peak Processor
Info:    Current chromosome : chr12
Info:    Reads used: 265777
Info:    Reads filtered by duplicate: 9727
Info:    Running Peak Processor
Info:    Current chromosome : chr13
Info:    Reads used: 303603
Info:    Reads filtered by duplicate: 7163
Info:    Running Peak Processor
Info:    Current chromosome : chr14
Info:    Reads used: 238585
Info:    Reads filtered by duplicate: 2892
Info:    Running Peak Processor
Info:    Current chromosome : chr15
Info:    Reads used: 301200
Info:    Reads filtered by duplicate: 4024
Info:    Running Peak Processor
Info:    Current chromosome : chr16
Info:    Reads used: 293685
Info:    Reads filtered by duplicate: 4266
Info:    Running Peak Processor
Info:    Current chromosome : chr17
Info:    Reads used: 300808
Info:    Reads filtered by duplicate: 3972
Info:    Running Peak Processor
Info:    Current chromosome : chr18
Info:    Reads used: 223049
Info:    Reads filtered by duplicate: 3048
Info:    Running Peak Processor
Info:    Current chromosome : chr19
Info:    Reads used: 216116
Info:    Reads filtered by duplicate: 2886
Info:    Running Peak Processor
Info:    Current chromosome : chr1
Info:    Reads used: 483093
Info:    Reads filtered by duplicate: 6149
Info:    Running Peak Processor
Info:    Current chromosome : chr2
Info:    Reads used: 596993
Info:    Reads filtered by duplicate: 166665
Info:    Running Peak Processor
Info:    Current chromosome : chr3
Info:    Reads used: 457807
Info:    Reads filtered by duplicate: 6629
Info:    Running Peak Processor
Info:    Current chromosome : chr4
Info:    Reads used: 368339
Info:    Reads filtered by duplicate: 5988
Info:    Running Peak Processor
Info:    Current chromosome : chr5
Info:    Reads used: 454193
Info:    Reads filtered by duplicate: 6109
Info:    Running Peak Processor
Info:    Current chromosome : chr6
Info:    Reads used: 535690
Info:    Reads filtered by duplicate: 11997
Info:    Running Peak Processor
Info:    Current chromosome : chr7
Info:    Reads used: 335232
Info:    Reads filtered by duplicate: 3837
Info:    Running Peak Processor
Info:    Current chromosome : chr8
Info:    Reads used: 412827
Info:    Reads filtered by duplicate: 5458
Info:    Running Peak Processor
Info:    Current chromosome : chr9
Info:    Reads used: 361894
Info:    Reads filtered by duplicate: 213210
Info:    Running Peak Processor
Info:    Current chromosome : chrX
Info:    Reads used: 209634
Info:    Reads filtered by duplicate: 4295
Info:    Wrote to:wig/3T3L1_t1_GSM535743_H3K4me1_ChIP-seq.mm9_ht3_q10_triangle_standard.wig.gz