INFO @ Mon, 22 Oct 2018 10:15:59: # Command line: callpeak -t ././SRR5345698/STAR/Aligned.out.rmdup.sorted.bam --outdir ././SRR5345698/MACS2 # ARGUMENTS LIST: # name = NA # format = AUTO # ChIP-seq file = ['././SRR5345698/STAR/Aligned.out.rmdup.sorted.bam'] # control file = None # effective genome size = 2.70e+09 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 5.00e-02 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Mon, 22 Oct 2018 10:15:59: #1 read tag files... INFO @ Mon, 22 Oct 2018 10:15:59: #1 read treatment tags... INFO @ Mon, 22 Oct 2018 10:15:59: Detected format is: BAM INFO @ Mon, 22 Oct 2018 10:15:59: * Input file is gzipped. INFO @ Mon, 22 Oct 2018 10:16:02: 1000000 INFO @ Mon, 22 Oct 2018 10:16:05: 2000000 INFO @ Mon, 22 Oct 2018 10:16:08: 3000000 INFO @ Mon, 22 Oct 2018 10:16:11: 4000000 INFO @ Mon, 22 Oct 2018 10:16:14: 5000000 INFO @ Mon, 22 Oct 2018 10:16:17: 6000000 INFO @ Mon, 22 Oct 2018 10:16:20: 7000000 INFO @ Mon, 22 Oct 2018 10:16:23: 8000000 INFO @ Mon, 22 Oct 2018 10:16:26: 9000000 INFO @ Mon, 22 Oct 2018 10:16:29: 10000000 INFO @ Mon, 22 Oct 2018 10:16:32: 11000000 INFO @ Mon, 22 Oct 2018 10:16:35: 12000000 INFO @ Mon, 22 Oct 2018 10:16:38: 13000000 INFO @ Mon, 22 Oct 2018 10:16:41: 14000000 INFO @ Mon, 22 Oct 2018 10:16:43: 15000000 INFO @ Mon, 22 Oct 2018 10:16:46: 16000000 INFO @ Mon, 22 Oct 2018 10:16:49: 17000000 INFO @ Mon, 22 Oct 2018 10:16:52: 18000000 INFO @ Mon, 22 Oct 2018 10:16:55: 19000000 INFO @ Mon, 22 Oct 2018 10:16:58: 20000000 INFO @ Mon, 22 Oct 2018 10:17:01: 21000000 INFO @ Mon, 22 Oct 2018 10:17:04: 22000000 INFO @ Mon, 22 Oct 2018 10:17:07: 23000000 INFO @ Mon, 22 Oct 2018 10:17:10: 24000000 INFO @ Mon, 22 Oct 2018 10:17:13: 25000000 INFO @ Mon, 22 Oct 2018 10:17:16: 26000000 INFO @ Mon, 22 Oct 2018 10:17:19: 27000000 INFO @ Mon, 22 Oct 2018 10:17:22: 28000000 INFO @ Mon, 22 Oct 2018 10:17:24: 29000000 INFO @ Mon, 22 Oct 2018 10:17:27: 30000000 INFO @ Mon, 22 Oct 2018 10:17:30: 31000000 INFO @ Mon, 22 Oct 2018 10:17:33: 32000000 INFO @ Mon, 22 Oct 2018 10:17:36: 33000000 INFO @ Mon, 22 Oct 2018 10:17:39: 34000000 INFO @ Mon, 22 Oct 2018 10:17:42: 35000000 INFO @ Mon, 22 Oct 2018 10:17:43: #1 tag size is determined as 51 bps INFO @ Mon, 22 Oct 2018 10:17:43: #1 tag size = 51 INFO @ Mon, 22 Oct 2018 10:17:43: #1 total tags in treatment: 31077289 INFO @ Mon, 22 Oct 2018 10:17:43: #1 user defined the maximum tags... INFO @ Mon, 22 Oct 2018 10:17:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 22 Oct 2018 10:17:44: #1 tags after filtering in treatment: 29412922 INFO @ Mon, 22 Oct 2018 10:17:44: #1 Redundant rate of treatment: 0.05 INFO @ Mon, 22 Oct 2018 10:17:44: #1 finished! INFO @ Mon, 22 Oct 2018 10:17:44: #2 Build Peak Model... INFO @ Mon, 22 Oct 2018 10:17:44: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 22 Oct 2018 10:17:49: #2 number of paired peaks: 134083 INFO @ Mon, 22 Oct 2018 10:17:49: start model_add_line... INFO @ Mon, 22 Oct 2018 10:17:49: start X-correlation... INFO @ Mon, 22 Oct 2018 10:17:49: end of X-cor INFO @ Mon, 22 Oct 2018 10:17:49: #2 finished! INFO @ Mon, 22 Oct 2018 10:17:49: #2 predicted fragment length is 242 bps INFO @ Mon, 22 Oct 2018 10:17:49: #2 alternative fragment length(s) may be 242 bps INFO @ Mon, 22 Oct 2018 10:17:49: #2.2 Generate R script for model : ././SRR5345698/MACS2/NA_model.r INFO @ Mon, 22 Oct 2018 10:17:49: #3 Call peaks... INFO @ Mon, 22 Oct 2018 10:17:49: #3 Pre-compute pvalue-qvalue table... INFO @ Mon, 22 Oct 2018 10:18:40: #3 Call peaks for each chromosome... INFO @ Mon, 22 Oct 2018 10:19:12: #4 Write output xls file... ././SRR5345698/MACS2/NA_peaks.xls INFO @ Mon, 22 Oct 2018 10:19:12: #4 Write peak in narrowPeak format file... ././SRR5345698/MACS2/NA_peaks.narrowPeak INFO @ Mon, 22 Oct 2018 10:19:12: #4 Write summits bed file... ././SRR5345698/MACS2/NA_summits.bed INFO @ Mon, 22 Oct 2018 10:19:12: Done!