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/HS1197bam2wigJune2010Q30.log Version: Initializing class Log_Buffer $Revision: 1643 $ Info: * Output directory : /projects/NBL/wig_files_transcriptome/ Info: * Naming files as : HS1197bam2wigJune2010Q30 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/HS1197.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: 7494758 Info: Reads filtered by iterator: 907044 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/HS1197bam2wigJune2010Q30_mode_3_standard_10.wig.gz Info: Running Peak Processor Info: Current chromosome : 11 Info: Reads used: 9575705 Info: Reads filtered by iterator: 1904770 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_11.wig.gz Info: Running Peak Processor Info: Current chromosome : 12 Info: Reads used: 14550361 Info: Reads filtered by iterator: 3565752 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_12.wig.gz Info: Running Peak Processor Info: Current chromosome : 13 Info: Reads used: 4618956 Info: Reads filtered by iterator: 3935678 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_13.wig.gz Info: Running Peak Processor Info: Current chromosome : 14 Info: Reads used: 6811354 Info: Reads filtered by iterator: 4587124 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_14.wig.gz Info: Running Peak Processor Info: Current chromosome : 15 Info: Reads used: 6075335 Info: Reads filtered by iterator: 5641796 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_15.wig.gz Info: Running Peak Processor Info: Current chromosome : 16 Info: Reads used: 6249272 Info: Reads filtered by iterator: 7248532 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_16.wig.gz Info: Running Peak Processor Info: Current chromosome : 17 Info: Reads used: 13328814 Info: Reads filtered by iterator: 9343356 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_17.wig.gz Info: Running Peak Processor Info: Current chromosome : 18 Info: Reads used: 4125728 Info: Reads filtered by iterator: 9676220 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_18.wig.gz Info: Running Peak Processor Info: Current chromosome : 19 Info: Reads used: 5617011 Info: Reads filtered by iterator: 10449155 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_19.wig.gz Info: Running Peak Processor Info: Current chromosome : 1 Info: Reads used: 17704813 Info: Reads filtered by iterator: 13330337 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_1.wig.gz Info: Running Peak Processor Info: Current chromosome : 20 Info: Reads used: 4466067 Info: Reads filtered by iterator: 13723228 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_20.wig.gz Info: Running Peak Processor Info: Current chromosome : 21 Info: Reads used: 1629110 Info: Reads filtered by iterator: 13905363 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_21.wig.gz Info: Running Peak Processor Info: Current chromosome : 22 Info: Reads used: 4361485 Info: Reads filtered by iterator: 14485056 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_22.wig.gz Info: Running Peak Processor Info: Current chromosome : 2 Info: Reads used: 20749711 Info: Reads filtered by iterator: 16777557 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_2.wig.gz Info: Running Peak Processor Info: Current chromosome : 3 Info: Reads used: 11393596 Info: Reads filtered by iterator: 17854641 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_3.wig.gz Info: Running Peak Processor Info: Current chromosome : 4 Info: Reads used: 8771024 Info: Reads filtered by iterator: 18745182 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_4.wig.gz Info: Running Peak Processor Info: Current chromosome : 5 Info: Reads used: 9556926 Info: Reads filtered by iterator: 20233837 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_5.wig.gz Info: Running Peak Processor Info: Current chromosome : 6 Info: Reads used: 9007805 Info: Reads filtered by iterator: 21141769 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_6.wig.gz Info: Running Peak Processor Info: Current chromosome : 7 Info: Reads used: 14509731 Info: Reads filtered by iterator: 23572693 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_7.wig.gz Info: Running Peak Processor Info: Current chromosome : 8 Info: Reads used: 7158333 Info: Reads filtered by iterator: 24358869 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_8.wig.gz Info: Running Peak Processor Info: Current chromosome : 9 Info: Reads used: 6710887 Info: Reads filtered by iterator: 25567183 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_9.wig.gz Info: Running Peak Processor Info: Current chromosome : M Info: Reads used: 7034154 Info: Reads filtered by iterator: 28701860 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_M.wig.gz Info: Running Peak Processor Info: Current chromosome : X Info: Reads used: 4860026 Info: Reads filtered by iterator: 29531900 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_X.wig.gz Info: Running Peak Processor Info: Current chromosome : Y Info: Reads used: 138181 Info: Reads filtered by iterator: 37250193 Info: writing to : /projects/NBL/wig_files_transcriptome/HS1197bam2wigJune2010Q30_mode_3_standard_Y.wig.gz