Info: Log File: wig/Mefs_H3K4me1_ChIP-seq_mm9_ht11_q10.log Info: * Output directory : wig/ Info: * Naming files as : Mefs_H3K4me1_ChIP-seq_mm9_ht11_q10 Info: * MC simulation : Off Info: * Chr name prepend : none Info: * Min. reported pk ht : 11 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/chr13_random.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/chr17_random.part.interval.gz Info: out/chr18.part.interval.gz Info: out/chr19.part.interval.gz Info: out/chr1.part.interval.gz Info: out/chr1_random.part.interval.gz Info: out/chr2.part.interval.gz Info: out/chr3.part.interval.gz Info: out/chr3_random.part.interval.gz Info: out/chr4.part.interval.gz Info: out/chr4_random.part.interval.gz Info: out/chr5.part.interval.gz Info: out/chr5_random.part.interval.gz Info: out/chr6.part.interval.gz Info: out/chr7.part.interval.gz Info: out/chr7_random.part.interval.gz Info: out/chr8.part.interval.gz Info: out/chr8_random.part.interval.gz Info: out/chr9.part.interval.gz Info: out/chr9_random.part.interval.gz Info: out/chrM.part.interval.gz Info: out/chrUn_random.part.interval.gz Info: out/chrX.part.interval.gz Info: out/chrX_random.part.interval.gz Info: out/chrY.part.interval.gz Info: out/chrY_random.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: 747166 Info: Reads filtered by duplicate: 175728 Version: Initializing class PeakStats $Revision: 2532 $ Version: Initializing class Histogram $Revision: 2530 $ Version: Initializing class WigwriterBuffered $Revision: 2530 $ Info: writing to : wig/Mefs_H3K4me1_ChIP-seq_mm9_ht11_q10_triangle_standard_chr10.wig.gz Info: Running Peak Processor Info: Current chromosome : chr11 Info: Reads used: 1098975 Info: Reads filtered by duplicate: 271557 Info: Running Peak Processor Info: Current chromosome : chr12 Info: Reads used: 624052 Info: Reads filtered by duplicate: 147855 Info: Running Peak Processor Info: Current chromosome : chr13 Info: Reads used: 624854 Info: Reads filtered by duplicate: 146315 Info: Running Peak Processor Info: Current chromosome : chr13_random Info: Reads used: 1804 Info: Reads filtered by duplicate: 203 Info: Running Peak Processor Info: Current chromosome : chr14 Info: Reads used: 578199 Info: Reads filtered by duplicate: 134034 Info: Running Peak Processor Info: Current chromosome : chr15 Info: Reads used: 682153 Info: Reads filtered by duplicate: 165106 Info: Running Peak Processor Info: Current chromosome : chr16 Info: Reads used: 517090 Info: Reads filtered by duplicate: 123501 Info: Running Peak Processor Info: Current chromosome : chr17 Info: Reads used: 660485 Info: Reads filtered by duplicate: 159320 Info: Running Peak Processor Info: Current chromosome : chr17_random Info: Reads used: 3227 Info: Reads filtered by duplicate: 539 Info: Running Peak Processor Info: Current chromosome : chr18 Info: Reads used: 500830 Info: Reads filtered by duplicate: 119925 Info: Running Peak Processor Info: Current chromosome : chr19 Info: Reads used: 450045 Info: Reads filtered by duplicate: 109172 Info: Running Peak Processor Info: Current chromosome : chr1 Info: Reads used: 1000445 Info: Reads filtered by duplicate: 234899 Info: Running Peak Processor Info: Current chromosome : chr1_random Info: Reads used: 5722 Info: Reads filtered by duplicate: 918 Info: Running Peak Processor Info: Current chromosome : chr2 Info: Reads used: 1184214 Info: Reads filtered by duplicate: 310879 Info: Running Peak Processor Info: Current chromosome : chr3 Info: Reads used: 728621 Info: Reads filtered by duplicate: 166836 Info: Running Peak Processor Info: Current chromosome : chr3_random Info: Reads used: 22 Info: Reads filtered by duplicate: 6 Info: Running Peak Processor Info: Current chromosome : chr4 Info: Reads used: 985001 Info: Reads filtered by duplicate: 236844 Info: Running Peak Processor Info: Current chromosome : chr4_random Info: Reads used: 393 Info: Reads filtered by duplicate: 126 Info: Running Peak Processor Info: Current chromosome : chr5 Info: Reads used: 931900 Info: Reads filtered by duplicate: 226664 Info: Running Peak Processor Info: Current chromosome : chr5_random Info: Reads used: 89 Info: Reads filtered by duplicate: 1 Info: Running Peak Processor Info: Current chromosome : chr6 Info: Reads used: 831437 Info: Reads filtered by duplicate: 197422 Info: Running Peak Processor Info: Current chromosome : chr7 Info: Reads used: 969631 Info: Reads filtered by duplicate: 236529 Info: Running Peak Processor Info: Current chromosome : chr7_random Info: Reads used: 100 Info: Reads filtered by duplicate: 4 Info: Running Peak Processor Info: Current chromosome : chr8 Info: Reads used: 875231 Info: Reads filtered by duplicate: 214195 Info: Running Peak Processor Info: Current chromosome : chr8_random Info: Reads used: 2186 Info: Reads filtered by duplicate: 312 Info: Running Peak Processor Info: Current chromosome : chr9 Info: Reads used: 837426 Info: Reads filtered by duplicate: 225704 Info: Running Peak Processor Info: Current chromosome : chr9_random Info: Reads used: 2212 Info: Reads filtered by duplicate: 489 Info: Running Peak Processor Info: Current chromosome : chrM Info: Reads used: 260 Info: Reads filtered by duplicate: 92 Info: Running Peak Processor Info: Current chromosome : chrUn_random Info: Reads used: 11469 Info: Reads filtered by duplicate: 6202 Info: Running Peak Processor Info: Current chromosome : chrX Info: Reads used: 225219 Info: Reads filtered by duplicate: 40684 Info: Running Peak Processor Info: Current chromosome : chrX_random Info: Reads used: 1026 Info: Reads filtered by duplicate: 147 Info: Running Peak Processor Info: Current chromosome : chrY Info: Reads used: 1050 Info: Reads filtered by duplicate: 64 Info: Running Peak Processor Info: Current chromosome : chrY_random Info: Reads used: 9962 Info: Reads filtered by duplicate: 214 Info: Wrote to:wig/Mefs_H3K4me1_ChIP-seq_mm9_ht11_q10_triangle_standard.wig.gz