Version: Vancouver Short Read Analysis Package                4.0.13
Version: Initializing class FindPeaks                         $Revision: 2084 $
Version: Initializing class Parameters                        $Revision: 2225 $
Version: Initializing class Log_Buffer                        $Revision: 1643 $
Info:    Log File: /projects/remc_bigdata/hES_H1/MRE_4L_HS1052_hg18_xset2_mapq10_min2_dupN_2010100414.log
Info:     * Output directory     : /projects/remc_bigdata/hES_H1/
Info:     * Naming files as      : MRE_4L_HS1052_hg18_xset2_mapq10_min2_dupN_2010100414
Info:     * MC simulation        : Off
Info:     * Chr name prepend     : chr
Info:     * Min. reported pk ht  : 0
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              : maq
Info:     * Fixed width dist.    : 2 xset
Info:     * Maq file format      : 128bit reads (default value.  use -maq_read_size to override)
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 min.  : On (10)
Info:     * Input Files          : 
Info:          /archive/solexa1_4/analysis2/HS1052/meta_maq/HS1052_4_lanes_all.map
Info:    Inititing fixed width with max_len : 2
Version: Initializing class PeakWriter                        $Revision: 1498 $
Version: Initializing class Generic_AlignRead_Iterator        $Revision: 1600 $
Version: Initializing class MAQmapIterator                    $Revision: 1790 $
Info:    number of mapped reads in header: 30800868
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 : 1
Info:    Reads used: 641405
Info:    Reads filtered by duplicate: 1810441
Info:    Reads filtered by iterator: 998398
Version: Initializing class PeakStats                         $Revision: 1335 $
Version: Initializing class Histogram                         $Revision: 1197 $
Version: Initializing class WigwriterBuffered                 $Revision: 2195 $
Info:    writing to : /projects/remc_bigdata/hES_H1/MRE_4L_HS1052_hg18_xset2_mapq10_min2_dupN_2010100414_fixed_2_standard_1.wig.gz
Info:    Running Peak Processor
Info:    Current chromosome : 10
Info:    Reads used: 351401
Info:    Reads filtered by duplicate: 837737
Info:    Reads filtered by iterator: 1189120
Info:    Running Peak Processor
Info:    Current chromosome : 11
Info:    Reads used: 368815
Info:    Reads filtered by duplicate: 1029470
Info:    Reads filtered by iterator: 1402978
Info:    Running Peak Processor
Info:    Current chromosome : 12
Info:    Reads used: 351244
Info:    Reads filtered by duplicate: 942944
Info:    Reads filtered by iterator: 1572754
Info:    Running Peak Processor
Info:    Current chromosome : 13
Info:    Reads used: 203710
Info:    Reads filtered by duplicate: 397003
Info:    Reads filtered by iterator: 1662500
Info:    Running Peak Processor
Info:    Current chromosome : 14
Info:    Reads used: 233968
Info:    Reads filtered by duplicate: 614872
Info:    Reads filtered by iterator: 1770156
Info:    Running Peak Processor
Info:    Current chromosome : 15
Info:    Reads used: 227218
Info:    Reads filtered by duplicate: 605167
Info:    Reads filtered by iterator: 1950196
Info:    Running Peak Processor
Info:    Current chromosome : 16
Info:    Reads used: 272266
Info:    Reads filtered by duplicate: 826172
Info:    Reads filtered by iterator: 2247592
Info:    Running Peak Processor
Info:    Current chromosome : 17
Info:    Reads used: 316493
Info:    Reads filtered by duplicate: 1131844
Info:    Reads filtered by iterator: 2484598
Info:    Running Peak Processor
Info:    Current chromosome : 18
Info:    Reads used: 173778
Info:    Reads filtered by duplicate: 332878
Info:    Reads filtered by iterator: 2555424
Info:    Running Peak Processor
Info:    Current chromosome : 19
Info:    Reads used: 299437
Info:    Reads filtered by duplicate: 1233063
Info:    Reads filtered by iterator: 2738546
Info:    Running Peak Processor
Info:    Current chromosome : 2
Info:    Reads used: 576677
Info:    Reads filtered by duplicate: 1415586
Info:    Reads filtered by iterator: 3148546
Info:    Running Peak Processor
Info:    Current chromosome : 20
Info:    Reads used: 199389
Info:    Reads filtered by duplicate: 557637
Info:    Reads filtered by iterator: 3219654
Info:    Running Peak Processor
Info:    Current chromosome : 21
Info:    Reads used: 91401
Info:    Reads filtered by duplicate: 196197
Info:    Reads filtered by iterator: 3262508
Info:    Running Peak Processor
Info:    Current chromosome : 22
Info:    Reads used: 142151
Info:    Reads filtered by duplicate: 365815
Info:    Reads filtered by iterator: 3361434
Info:    Running Peak Processor
Info:    Current chromosome : 3
Info:    Reads used: 447835
Info:    Reads filtered by duplicate: 967452
Info:    Reads filtered by iterator: 3565264
Info:    Running Peak Processor
Info:    Current chromosome : 4
Info:    Reads used: 385472
Info:    Reads filtered by duplicate: 774472
Info:    Reads filtered by iterator: 3812698
Info:    Running Peak Processor
Info:    Current chromosome : 5
Info:    Reads used: 403673
Info:    Reads filtered by duplicate: 932671
Info:    Reads filtered by iterator: 4104390
Info:    Running Peak Processor
Info:    Current chromosome : 6
Info:    Reads used: 409232
Info:    Reads filtered by duplicate: 1047344
Info:    Reads filtered by iterator: 4316712
Info:    Running Peak Processor
Info:    Current chromosome : 7
Info:    Reads used: 396236
Info:    Reads filtered by duplicate: 924728
Info:    Reads filtered by iterator: 4665044
Info:    Running Peak Processor
Info:    Current chromosome : 8
Info:    Reads used: 343215
Info:    Reads filtered by duplicate: 740895
Info:    Reads filtered by iterator: 4902346
Info:    Running Peak Processor
Info:    Current chromosome : 9
Info:    Reads used: 311561
Info:    Reads filtered by duplicate: 776300
Info:    Reads filtered by iterator: 5263482
Info:    Running Peak Processor
Info:    Current chromosome : MT
Info:    Reads used: 7358
Info:    Reads filtered by duplicate: 1354455
Info:    Reads filtered by iterator: 6017122
Info:    Running Peak Processor
Info:    Current chromosome : X
Info:    Reads used: 194369
Info:    Reads filtered by duplicate: 362473
Info:    Reads filtered by iterator: 6262238
Info:    Running Peak Processor
Info:    Current chromosome : Y
Info:    Reads used: 21449
Info:    Reads filtered by duplicate: 67467
Info:    Reads filtered by iterator: 6372016
Info:    Wrote to:/projects/remc_bigdata/hES_H1/MRE_4L_HS1052_hg18_xset2_mapq10_min2_dupN_2010100414_fixed_2_standard.wig.gz