Job ID = 16440109 SRX = SRX12178812 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T08:12:20 prefetch.2.10.7: 1) Downloading 'SRR15888102'... 2022-08-02T08:12:20 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T08:14:28 prefetch.2.10.7: HTTPS download succeed 2022-08-02T08:14:28 prefetch.2.10.7: 1) 'SRR15888102' was downloaded successfully 2022-08-02T08:14:28 prefetch.2.10.7: 'SRR15888102' has 0 unresolved dependencies Read 40198404 spots for SRR15888102/SRR15888102.sra Written 40198404 spots for SRR15888102/SRR15888102.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440869 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:38:39 40198404 reads; of these: 40198404 (100.00%) were paired; of these: 14246280 (35.44%) aligned concordantly 0 times 22479694 (55.92%) aligned concordantly exactly 1 time 3472430 (8.64%) aligned concordantly >1 times ---- 14246280 pairs aligned concordantly 0 times; of these: 5757384 (40.41%) aligned discordantly 1 time ---- 8488896 pairs aligned 0 times concordantly or discordantly; of these: 16977792 mates make up the pairs; of these: 10068129 (59.30%) aligned 0 times 5158394 (30.38%) aligned exactly 1 time 1751269 (10.32%) aligned >1 times 87.48% overall alignment rate Time searching: 00:38:39 Overall time: 00:38:40 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 32 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 5053127 / 31624808 = 0.1598 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 18:13:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # 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 @ Tue, 02 Aug 2022 18:13:29: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:13:29: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:13:35: 1000000 INFO @ Tue, 02 Aug 2022 18:13:41: 2000000 INFO @ Tue, 02 Aug 2022 18:13:47: 3000000 INFO @ Tue, 02 Aug 2022 18:13:53: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 18:13:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # 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 @ Tue, 02 Aug 2022 18:13:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:13:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:13:59: 5000000 INFO @ Tue, 02 Aug 2022 18:14:04: 1000000 INFO @ Tue, 02 Aug 2022 18:14:05: 6000000 INFO @ Tue, 02 Aug 2022 18:14:10: 2000000 INFO @ Tue, 02 Aug 2022 18:14:12: 7000000 INFO @ Tue, 02 Aug 2022 18:14:16: 3000000 INFO @ Tue, 02 Aug 2022 18:14:18: 8000000 INFO @ Tue, 02 Aug 2022 18:14:22: 4000000 INFO @ Tue, 02 Aug 2022 18:14:25: 9000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 18:14:28: 5000000 INFO @ Tue, 02 Aug 2022 18:14:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.bam'] # control file = None # effective genome size = 1.20e+08 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # 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 @ Tue, 02 Aug 2022 18:14:28: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:14:28: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:14:31: 10000000 INFO @ Tue, 02 Aug 2022 18:14:34: 6000000 INFO @ Tue, 02 Aug 2022 18:14:34: 1000000 INFO @ Tue, 02 Aug 2022 18:14:38: 11000000 INFO @ Tue, 02 Aug 2022 18:14:40: 7000000 INFO @ Tue, 02 Aug 2022 18:14:41: 2000000 INFO @ Tue, 02 Aug 2022 18:14:45: 12000000 INFO @ Tue, 02 Aug 2022 18:14:46: 8000000 INFO @ Tue, 02 Aug 2022 18:14:47: 3000000 INFO @ Tue, 02 Aug 2022 18:14:51: 13000000 INFO @ Tue, 02 Aug 2022 18:14:52: 9000000 INFO @ Tue, 02 Aug 2022 18:14:54: 4000000 INFO @ Tue, 02 Aug 2022 18:14:57: 10000000 INFO @ Tue, 02 Aug 2022 18:14:58: 14000000 INFO @ Tue, 02 Aug 2022 18:15:00: 5000000 INFO @ Tue, 02 Aug 2022 18:15:03: 11000000 INFO @ Tue, 02 Aug 2022 18:15:04: 15000000 INFO @ Tue, 02 Aug 2022 18:15:06: 6000000 INFO @ Tue, 02 Aug 2022 18:15:09: 12000000 INFO @ Tue, 02 Aug 2022 18:15:11: 16000000 INFO @ Tue, 02 Aug 2022 18:15:13: 7000000 INFO @ Tue, 02 Aug 2022 18:15:15: 13000000 INFO @ Tue, 02 Aug 2022 18:15:18: 17000000 INFO @ Tue, 02 Aug 2022 18:15:19: 8000000 INFO @ Tue, 02 Aug 2022 18:15:21: 14000000 INFO @ Tue, 02 Aug 2022 18:15:24: 18000000 INFO @ Tue, 02 Aug 2022 18:15:25: 9000000 INFO @ Tue, 02 Aug 2022 18:15:27: 15000000 INFO @ Tue, 02 Aug 2022 18:15:31: 19000000 INFO @ Tue, 02 Aug 2022 18:15:31: 10000000 INFO @ Tue, 02 Aug 2022 18:15:32: 16000000 INFO @ Tue, 02 Aug 2022 18:15:37: 20000000 INFO @ Tue, 02 Aug 2022 18:15:38: 11000000 INFO @ Tue, 02 Aug 2022 18:15:38: 17000000 INFO @ Tue, 02 Aug 2022 18:15:44: 12000000 INFO @ Tue, 02 Aug 2022 18:15:44: 18000000 INFO @ Tue, 02 Aug 2022 18:15:44: 21000000 INFO @ Tue, 02 Aug 2022 18:15:50: 19000000 INFO @ Tue, 02 Aug 2022 18:15:50: 13000000 INFO @ Tue, 02 Aug 2022 18:15:51: 22000000 INFO @ Tue, 02 Aug 2022 18:15:56: 20000000 INFO @ Tue, 02 Aug 2022 18:15:56: 14000000 INFO @ Tue, 02 Aug 2022 18:15:58: 23000000 INFO @ Tue, 02 Aug 2022 18:16:01: 21000000 INFO @ Tue, 02 Aug 2022 18:16:02: 15000000 INFO @ Tue, 02 Aug 2022 18:16:04: 24000000 INFO @ Tue, 02 Aug 2022 18:16:07: 22000000 INFO @ Tue, 02 Aug 2022 18:16:09: 16000000 INFO @ Tue, 02 Aug 2022 18:16:11: 25000000 INFO @ Tue, 02 Aug 2022 18:16:13: 23000000 INFO @ Tue, 02 Aug 2022 18:16:15: 17000000 INFO @ Tue, 02 Aug 2022 18:16:18: 26000000 INFO @ Tue, 02 Aug 2022 18:16:19: 24000000 INFO @ Tue, 02 Aug 2022 18:16:21: 18000000 INFO @ Tue, 02 Aug 2022 18:16:25: 25000000 INFO @ Tue, 02 Aug 2022 18:16:25: 27000000 INFO @ Tue, 02 Aug 2022 18:16:27: 19000000 INFO @ Tue, 02 Aug 2022 18:16:30: 26000000 INFO @ Tue, 02 Aug 2022 18:16:32: 28000000 INFO @ Tue, 02 Aug 2022 18:16:33: 20000000 INFO @ Tue, 02 Aug 2022 18:16:36: 27000000 INFO @ Tue, 02 Aug 2022 18:16:38: 29000000 INFO @ Tue, 02 Aug 2022 18:16:40: 21000000 INFO @ Tue, 02 Aug 2022 18:16:42: 28000000 INFO @ Tue, 02 Aug 2022 18:16:44: 30000000 INFO @ Tue, 02 Aug 2022 18:16:46: 22000000 INFO @ Tue, 02 Aug 2022 18:16:48: 29000000 INFO @ Tue, 02 Aug 2022 18:16:51: 31000000 INFO @ Tue, 02 Aug 2022 18:16:52: 23000000 INFO @ Tue, 02 Aug 2022 18:16:54: 30000000 INFO @ Tue, 02 Aug 2022 18:16:57: 32000000 INFO @ Tue, 02 Aug 2022 18:16:58: 24000000 INFO @ Tue, 02 Aug 2022 18:16:59: 31000000 INFO @ Tue, 02 Aug 2022 18:17:03: 33000000 INFO @ Tue, 02 Aug 2022 18:17:05: 25000000 INFO @ Tue, 02 Aug 2022 18:17:05: 32000000 INFO @ Tue, 02 Aug 2022 18:17:09: 34000000 INFO @ Tue, 02 Aug 2022 18:17:11: 33000000 INFO @ Tue, 02 Aug 2022 18:17:11: 26000000 INFO @ Tue, 02 Aug 2022 18:17:15: 35000000 INFO @ Tue, 02 Aug 2022 18:17:16: 34000000 INFO @ Tue, 02 Aug 2022 18:17:17: 27000000 INFO @ Tue, 02 Aug 2022 18:17:21: 36000000 INFO @ Tue, 02 Aug 2022 18:17:22: 35000000 INFO @ Tue, 02 Aug 2022 18:17:23: 28000000 INFO @ Tue, 02 Aug 2022 18:17:28: 37000000 INFO @ Tue, 02 Aug 2022 18:17:28: 36000000 INFO @ Tue, 02 Aug 2022 18:17:30: 29000000 INFO @ Tue, 02 Aug 2022 18:17:33: 37000000 INFO @ Tue, 02 Aug 2022 18:17:34: 38000000 INFO @ Tue, 02 Aug 2022 18:17:36: 30000000 INFO @ Tue, 02 Aug 2022 18:17:39: 38000000 INFO @ Tue, 02 Aug 2022 18:17:40: 39000000 INFO @ Tue, 02 Aug 2022 18:17:42: 31000000 INFO @ Tue, 02 Aug 2022 18:17:45: 39000000 INFO @ Tue, 02 Aug 2022 18:17:46: 40000000 INFO @ Tue, 02 Aug 2022 18:17:48: 32000000 INFO @ Tue, 02 Aug 2022 18:17:50: 40000000 INFO @ Tue, 02 Aug 2022 18:17:52: 41000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 18:17:54: 33000000 INFO @ Tue, 02 Aug 2022 18:17:56: 41000000 INFO @ Tue, 02 Aug 2022 18:17:59: 42000000 INFO @ Tue, 02 Aug 2022 18:18:00: 34000000 INFO @ Tue, 02 Aug 2022 18:18:02: 42000000 INFO @ Tue, 02 Aug 2022 18:18:05: 43000000 INFO @ Tue, 02 Aug 2022 18:18:06: 35000000 INFO @ Tue, 02 Aug 2022 18:18:08: 43000000 INFO @ Tue, 02 Aug 2022 18:18:11: 44000000 INFO @ Tue, 02 Aug 2022 18:18:12: 36000000 INFO @ Tue, 02 Aug 2022 18:18:13: 44000000 INFO @ Tue, 02 Aug 2022 18:18:17: 45000000 INFO @ Tue, 02 Aug 2022 18:18:19: 37000000 INFO @ Tue, 02 Aug 2022 18:18:19: 45000000 INFO @ Tue, 02 Aug 2022 18:18:23: 46000000 INFO @ Tue, 02 Aug 2022 18:18:25: 46000000 INFO @ Tue, 02 Aug 2022 18:18:25: 38000000 INFO @ Tue, 02 Aug 2022 18:18:30: 47000000 INFO @ Tue, 02 Aug 2022 18:18:30: 47000000 INFO @ Tue, 02 Aug 2022 18:18:31: 39000000 INFO @ Tue, 02 Aug 2022 18:18:36: 48000000 INFO @ Tue, 02 Aug 2022 18:18:37: 48000000 INFO @ Tue, 02 Aug 2022 18:18:37: 40000000 INFO @ Tue, 02 Aug 2022 18:18:42: 49000000 INFO @ Tue, 02 Aug 2022 18:18:43: 49000000 INFO @ Tue, 02 Aug 2022 18:18:43: 41000000 INFO @ Tue, 02 Aug 2022 18:18:49: 50000000 INFO @ Tue, 02 Aug 2022 18:18:49: 42000000 INFO @ Tue, 02 Aug 2022 18:18:49: 50000000 INFO @ Tue, 02 Aug 2022 18:18:55: 51000000 INFO @ Tue, 02 Aug 2022 18:18:55: 43000000 INFO @ Tue, 02 Aug 2022 18:18:56: 51000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 18:19:01: 44000000 INFO @ Tue, 02 Aug 2022 18:19:01: 52000000 INFO @ Tue, 02 Aug 2022 18:19:02: 52000000 INFO @ Tue, 02 Aug 2022 18:19:07: 45000000 INFO @ Tue, 02 Aug 2022 18:19:08: 53000000 INFO @ Tue, 02 Aug 2022 18:19:08: 53000000 INFO @ Tue, 02 Aug 2022 18:19:13: 46000000 INFO @ Tue, 02 Aug 2022 18:19:14: 54000000 INFO @ Tue, 02 Aug 2022 18:19:15: 54000000 INFO @ Tue, 02 Aug 2022 18:19:19: 47000000 INFO @ Tue, 02 Aug 2022 18:19:20: 55000000 INFO @ Tue, 02 Aug 2022 18:19:21: 55000000 INFO @ Tue, 02 Aug 2022 18:19:26: 48000000 INFO @ Tue, 02 Aug 2022 18:19:27: 56000000 INFO @ Tue, 02 Aug 2022 18:19:27: 56000000 INFO @ Tue, 02 Aug 2022 18:19:32: 49000000 INFO @ Tue, 02 Aug 2022 18:19:33: 57000000 INFO @ Tue, 02 Aug 2022 18:19:33: 57000000 INFO @ Tue, 02 Aug 2022 18:19:38: 50000000 INFO @ Tue, 02 Aug 2022 18:19:39: 58000000 INFO @ Tue, 02 Aug 2022 18:19:40: 58000000 INFO @ Tue, 02 Aug 2022 18:19:44: 51000000 INFO @ Tue, 02 Aug 2022 18:19:45: 59000000 INFO @ Tue, 02 Aug 2022 18:19:46: 59000000 INFO @ Tue, 02 Aug 2022 18:19:50: 52000000 INFO @ Tue, 02 Aug 2022 18:19:52: 60000000 INFO @ Tue, 02 Aug 2022 18:19:52: 60000000 INFO @ Tue, 02 Aug 2022 18:19:53: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:19:53: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:19:53: #1 total tags in treatment: 21506373 INFO @ Tue, 02 Aug 2022 18:19:53: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:19:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 18:19:54: #1 tags after filtering in treatment: 14000720 INFO @ Tue, 02 Aug 2022 18:19:54: #1 Redundant rate of treatment: 0.35 INFO @ Tue, 02 Aug 2022 18:19:54: #1 finished! INFO @ Tue, 02 Aug 2022 18:19:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:19:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:19:54: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:19:54: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:19:54: #1 total tags in treatment: 21506373 INFO @ Tue, 02 Aug 2022 18:19:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:19:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 18:19:54: #1 tags after filtering in treatment: 14000720 INFO @ Tue, 02 Aug 2022 18:19:54: #1 Redundant rate of treatment: 0.35 INFO @ Tue, 02 Aug 2022 18:19:54: #1 finished! INFO @ Tue, 02 Aug 2022 18:19:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:19:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:19:55: #2 number of paired peaks: 1601 INFO @ Tue, 02 Aug 2022 18:19:55: start model_add_line... INFO @ Tue, 02 Aug 2022 18:19:55: start X-correlation... INFO @ Tue, 02 Aug 2022 18:19:55: end of X-cor INFO @ Tue, 02 Aug 2022 18:19:55: #2 finished! INFO @ Tue, 02 Aug 2022 18:19:55: #2 predicted fragment length is 78 bps INFO @ Tue, 02 Aug 2022 18:19:55: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 02 Aug 2022 18:19:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05_model.r WARNING @ Tue, 02 Aug 2022 18:19:55: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:19:55: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Tue, 02 Aug 2022 18:19:55: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 18:19:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:19:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:19:55: #2 number of paired peaks: 1601 INFO @ Tue, 02 Aug 2022 18:19:55: start model_add_line... INFO @ Tue, 02 Aug 2022 18:19:55: start X-correlation... INFO @ Tue, 02 Aug 2022 18:19:55: end of X-cor INFO @ Tue, 02 Aug 2022 18:19:55: #2 finished! INFO @ Tue, 02 Aug 2022 18:19:55: #2 predicted fragment length is 78 bps INFO @ Tue, 02 Aug 2022 18:19:55: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 02 Aug 2022 18:19:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10_model.r WARNING @ Tue, 02 Aug 2022 18:19:55: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:19:55: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Tue, 02 Aug 2022 18:19:55: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 18:19:55: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:19:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:19:56: 53000000 INFO @ Tue, 02 Aug 2022 18:20:02: 54000000 INFO @ Tue, 02 Aug 2022 18:20:08: 55000000 INFO @ Tue, 02 Aug 2022 18:20:13: 56000000 INFO @ Tue, 02 Aug 2022 18:20:19: 57000000 INFO @ Tue, 02 Aug 2022 18:20:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:20:25: 58000000 INFO @ Tue, 02 Aug 2022 18:20:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:20:30: 59000000 INFO @ Tue, 02 Aug 2022 18:20:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10_peaks.xls INFO @ Tue, 02 Aug 2022 18:20:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:20:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.10_summits.bed INFO @ Tue, 02 Aug 2022 18:20:35: Done! pass1 - making usageList (14 chroms): 2 millis INFO @ Tue, 02 Aug 2022 18:20:36: 60000000 pass2 - checking and writing primary data (10408 records, 4 fields): 242 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:20:37: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:20:37: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:20:37: #1 total tags in treatment: 21506373 INFO @ Tue, 02 Aug 2022 18:20:37: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:20:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 18:20:37: #1 tags after filtering in treatment: 14000720 INFO @ Tue, 02 Aug 2022 18:20:37: #1 Redundant rate of treatment: 0.35 INFO @ Tue, 02 Aug 2022 18:20:37: #1 finished! INFO @ Tue, 02 Aug 2022 18:20:37: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:20:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:20:39: #2 number of paired peaks: 1601 INFO @ Tue, 02 Aug 2022 18:20:39: start model_add_line... INFO @ Tue, 02 Aug 2022 18:20:39: start X-correlation... INFO @ Tue, 02 Aug 2022 18:20:39: end of X-cor INFO @ Tue, 02 Aug 2022 18:20:39: #2 finished! INFO @ Tue, 02 Aug 2022 18:20:39: #2 predicted fragment length is 78 bps INFO @ Tue, 02 Aug 2022 18:20:39: #2 alternative fragment length(s) may be 78 bps INFO @ Tue, 02 Aug 2022 18:20:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20_model.r WARNING @ Tue, 02 Aug 2022 18:20:39: #2 Since the d (78) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:20:39: #2 You may need to consider one of the other alternative d(s): 78 WARNING @ Tue, 02 Aug 2022 18:20:39: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 02 Aug 2022 18:20:39: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:20:39: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:20:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05_peaks.xls INFO @ Tue, 02 Aug 2022 18:20:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:20:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.05_summits.bed INFO @ Tue, 02 Aug 2022 18:20:42: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (19050 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:21:06: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:21:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20_peaks.xls INFO @ Tue, 02 Aug 2022 18:21:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:21:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178812/SRX12178812.20_summits.bed INFO @ Tue, 02 Aug 2022 18:21:19: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2229 records, 4 fields): 13 millis CompletedMACS2peakCalling