Version: Vancouver Short Read Analysis Package 4.0.13 Version: Initializing class FindPeaks $Revision: 2084 $ Version: Initializing class Parameters $Revision: 2225 $ Info: Log File: /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30.log Version: Initializing class Log_Buffer $Revision: 1643 $ Info: * Output directory : /projects/NBL/wig_files_transcriptome/ Info: * Naming files as : HS1198bam2wigJune2010Q30 Info: * MC simulation : Off Info: * Chr name prepend : none 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: 1000 Info: * Aligner : sam Info: * PET/native mode : On Info: * One file per chr. : On 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 : Off Info: * Filter quality min. : On (30) Info: * Input Files : Info: /projects/olenam/NBL_targets_genomes_variants/BAM_files/transcriptome/HS1198.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 : 10 Info: Reads used: 5684416 Info: Reads filtered by iterator: 949038 Version: Initializing class PeakStats $Revision: 1335 $ Version: Initializing class Histogram $Revision: 1197 $ Version: Initializing class WigwriterBuffered $Revision: 2195 $ Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_10.wig.gz Info: Running Peak Processor Info: Current chromosome : 11 Info: Reads used: 6298017 Info: Reads filtered by iterator: 1917171 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_11.wig.gz Info: Running Peak Processor Info: Current chromosome : 12 Info: Reads used: 6234227 Info: Reads filtered by iterator: 3237355 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_12.wig.gz Info: Running Peak Processor Info: Current chromosome : 13 Info: Reads used: 2589586 Info: Reads filtered by iterator: 3571481 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_13.wig.gz Info: Running Peak Processor Info: Current chromosome : 14 Info: Reads used: 3654164 Info: Reads filtered by iterator: 4136364 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_14.wig.gz Info: Running Peak Processor Info: Current chromosome : 15 Info: Reads used: 3569656 Info: Reads filtered by iterator: 5133715 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_15.wig.gz Info: Running Peak Processor Info: Current chromosome : 16 Info: Reads used: 3805898 Info: Reads filtered by iterator: 6211280 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_16.wig.gz Info: Running Peak Processor Info: Current chromosome : 17 Info: Reads used: 7399831 Info: Reads filtered by iterator: 7616207 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_17.wig.gz Info: Running Peak Processor Info: Current chromosome : 18 Info: Reads used: 1808690 Info: Reads filtered by iterator: 8037663 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_18.wig.gz Info: Running Peak Processor Info: Current chromosome : 19 Info: Reads used: 4762645 Info: Reads filtered by iterator: 8935327 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_19.wig.gz Info: Running Peak Processor Info: Current chromosome : 1 Info: Reads used: 8318775 Info: Reads filtered by iterator: 11288213 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_1.wig.gz Info: Running Peak Processor Info: Current chromosome : 20 Info: Reads used: 3318849 Info: Reads filtered by iterator: 11690773 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_20.wig.gz Info: Running Peak Processor Info: Current chromosome : 21 Info: Reads used: 1299279 Info: Reads filtered by iterator: 11877498 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_21.wig.gz Info: Running Peak Processor Info: Current chromosome : 22 Info: Reads used: 2470908 Info: Reads filtered by iterator: 12325755 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_22.wig.gz Info: Running Peak Processor Info: Current chromosome : 2 Info: Reads used: 8975649 Info: Reads filtered by iterator: 13961518 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_2.wig.gz Info: Running Peak Processor Info: Current chromosome : 3 Info: Reads used: 6649898 Info: Reads filtered by iterator: 15044963 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_3.wig.gz Info: Running Peak Processor Info: Current chromosome : 4 Info: Reads used: 4961734 Info: Reads filtered by iterator: 15918353 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_4.wig.gz Info: Running Peak Processor Info: Current chromosome : 5 Info: Reads used: 6436236 Info: Reads filtered by iterator: 17490688 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_5.wig.gz Info: Running Peak Processor Info: Current chromosome : 6 Info: Reads used: 5332687 Info: Reads filtered by iterator: 18700717 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_6.wig.gz Info: Running Peak Processor Info: Current chromosome : 7 Info: Reads used: 5827477 Info: Reads filtered by iterator: 20609535 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_7.wig.gz Info: Running Peak Processor Info: Current chromosome : 8 Info: Reads used: 4189322 Info: Reads filtered by iterator: 21214520 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_8.wig.gz Info: Running Peak Processor Info: Current chromosome : 9 Info: Reads used: 4662997 Info: Reads filtered by iterator: 22750277 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_9.wig.gz Info: Running Peak Processor Info: Current chromosome : M Info: Reads used: 4491988 Info: Reads filtered by iterator: 25160867 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_M.wig.gz Info: Running Peak Processor Info: Current chromosome : X Info: Reads used: 3908389 Info: Reads filtered by iterator: 26143558 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_X.wig.gz Info: Running Peak Processor Info: Current chromosome : Y Info: Reads used: 293212 Info: Reads filtered by iterator: 50743845 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1198bam2wigJune2010Q30_mode_3_standard_Y.wig.gz