Job ID = 16436218 SRX = SRX12178864 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:07:46 prefetch.2.10.7: 1) Downloading 'SRR15888050'... 2022-08-02T02:07:46 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:10:45 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:10:45 prefetch.2.10.7: 1) 'SRR15888050' was downloaded successfully 2022-08-02T02:10:45 prefetch.2.10.7: 'SRR15888050' has 0 unresolved dependencies Read 55989413 spots for SRR15888050/SRR15888050.sra Written 55989413 spots for SRR15888050/SRR15888050.sra fastq に変換しました。 bowtie でマッピング中... Your job 16437476 ("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: 01:15:55 55989413 reads; of these: 55989413 (100.00%) were paired; of these: 15966198 (28.52%) aligned concordantly 0 times 34858023 (62.26%) aligned concordantly exactly 1 time 5165192 (9.23%) aligned concordantly >1 times ---- 15966198 pairs aligned concordantly 0 times; of these: 5963008 (37.35%) aligned discordantly 1 time ---- 10003190 pairs aligned 0 times concordantly or discordantly; of these: 20006380 mates make up the pairs; of these: 12834307 (64.15%) aligned 0 times 5317092 (26.58%) aligned exactly 1 time 1854981 (9.27%) aligned >1 times 88.54% overall alignment rate Time searching: 01:15:55 Overall time: 01:15:55 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 44 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] 13468725 / 45846136 = 0.2938 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 13:02:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.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 13:02:29: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:02:29: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:02:37: 1000000 INFO @ Tue, 02 Aug 2022 13:02:45: 2000000 INFO @ Tue, 02 Aug 2022 13:02:53: 3000000 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 13:02:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.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 13:02:58: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:02:58: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:03:01: 4000000 INFO @ Tue, 02 Aug 2022 13:03:07: 1000000 INFO @ Tue, 02 Aug 2022 13:03:09: 5000000 INFO @ Tue, 02 Aug 2022 13:03:16: 2000000 INFO @ Tue, 02 Aug 2022 13:03:18: 6000000 INFO @ Tue, 02 Aug 2022 13:03:24: 3000000 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 13:03:26: 7000000 INFO @ Tue, 02 Aug 2022 13:03:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.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 13:03:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 13:03:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 13:03:33: 4000000 INFO @ Tue, 02 Aug 2022 13:03:35: 8000000 INFO @ Tue, 02 Aug 2022 13:03:36: 1000000 INFO @ Tue, 02 Aug 2022 13:03:41: 5000000 INFO @ Tue, 02 Aug 2022 13:03:44: 9000000 INFO @ Tue, 02 Aug 2022 13:03:45: 2000000 INFO @ Tue, 02 Aug 2022 13:03:50: 6000000 INFO @ Tue, 02 Aug 2022 13:03:53: 10000000 INFO @ Tue, 02 Aug 2022 13:03:53: 3000000 INFO @ Tue, 02 Aug 2022 13:03:59: 7000000 INFO @ Tue, 02 Aug 2022 13:04:01: 11000000 INFO @ Tue, 02 Aug 2022 13:04:02: 4000000 INFO @ Tue, 02 Aug 2022 13:04:07: 8000000 INFO @ Tue, 02 Aug 2022 13:04:10: 12000000 INFO @ Tue, 02 Aug 2022 13:04:10: 5000000 INFO @ Tue, 02 Aug 2022 13:04:16: 9000000 INFO @ Tue, 02 Aug 2022 13:04:19: 6000000 INFO @ Tue, 02 Aug 2022 13:04:19: 13000000 INFO @ Tue, 02 Aug 2022 13:04:25: 10000000 INFO @ Tue, 02 Aug 2022 13:04:27: 7000000 INFO @ Tue, 02 Aug 2022 13:04:28: 14000000 INFO @ Tue, 02 Aug 2022 13:04:33: 11000000 INFO @ Tue, 02 Aug 2022 13:04:36: 8000000 INFO @ Tue, 02 Aug 2022 13:04:36: 15000000 INFO @ Tue, 02 Aug 2022 13:04:42: 12000000 INFO @ Tue, 02 Aug 2022 13:04:45: 9000000 INFO @ Tue, 02 Aug 2022 13:04:45: 16000000 INFO @ Tue, 02 Aug 2022 13:04:51: 13000000 INFO @ Tue, 02 Aug 2022 13:04:54: 10000000 INFO @ Tue, 02 Aug 2022 13:04:54: 17000000 INFO @ Tue, 02 Aug 2022 13:05:00: 14000000 INFO @ Tue, 02 Aug 2022 13:05:03: 11000000 INFO @ Tue, 02 Aug 2022 13:05:03: 18000000 INFO @ Tue, 02 Aug 2022 13:05:09: 15000000 INFO @ Tue, 02 Aug 2022 13:05:12: 12000000 INFO @ Tue, 02 Aug 2022 13:05:12: 19000000 INFO @ Tue, 02 Aug 2022 13:05:18: 16000000 INFO @ Tue, 02 Aug 2022 13:05:21: 13000000 INFO @ Tue, 02 Aug 2022 13:05:21: 20000000 INFO @ Tue, 02 Aug 2022 13:05:27: 17000000 INFO @ Tue, 02 Aug 2022 13:05:30: 14000000 INFO @ Tue, 02 Aug 2022 13:05:30: 21000000 INFO @ Tue, 02 Aug 2022 13:05:36: 18000000 INFO @ Tue, 02 Aug 2022 13:05:38: 15000000 INFO @ Tue, 02 Aug 2022 13:05:39: 22000000 INFO @ Tue, 02 Aug 2022 13:05:45: 19000000 INFO @ Tue, 02 Aug 2022 13:05:47: 16000000 INFO @ Tue, 02 Aug 2022 13:05:48: 23000000 INFO @ Tue, 02 Aug 2022 13:05:54: 20000000 INFO @ Tue, 02 Aug 2022 13:05:56: 17000000 INFO @ Tue, 02 Aug 2022 13:05:57: 24000000 INFO @ Tue, 02 Aug 2022 13:06:03: 21000000 INFO @ Tue, 02 Aug 2022 13:06:05: 18000000 INFO @ Tue, 02 Aug 2022 13:06:06: 25000000 INFO @ Tue, 02 Aug 2022 13:06:12: 22000000 INFO @ Tue, 02 Aug 2022 13:06:14: 19000000 INFO @ Tue, 02 Aug 2022 13:06:14: 26000000 INFO @ Tue, 02 Aug 2022 13:06:20: 23000000 INFO @ Tue, 02 Aug 2022 13:06:23: 20000000 INFO @ Tue, 02 Aug 2022 13:06:23: 27000000 INFO @ Tue, 02 Aug 2022 13:06:29: 24000000 INFO @ Tue, 02 Aug 2022 13:06:32: 21000000 INFO @ Tue, 02 Aug 2022 13:06:32: 28000000 INFO @ Tue, 02 Aug 2022 13:06:38: 25000000 INFO @ Tue, 02 Aug 2022 13:06:40: 22000000 INFO @ Tue, 02 Aug 2022 13:06:41: 29000000 INFO @ Tue, 02 Aug 2022 13:06:47: 26000000 INFO @ Tue, 02 Aug 2022 13:06:49: 23000000 INFO @ Tue, 02 Aug 2022 13:06:50: 30000000 INFO @ Tue, 02 Aug 2022 13:06:56: 27000000 INFO @ Tue, 02 Aug 2022 13:06:58: 24000000 INFO @ Tue, 02 Aug 2022 13:06:58: 31000000 INFO @ Tue, 02 Aug 2022 13:07:05: 28000000 INFO @ Tue, 02 Aug 2022 13:07:07: 32000000 INFO @ Tue, 02 Aug 2022 13:07:07: 25000000 INFO @ Tue, 02 Aug 2022 13:07:14: 29000000 INFO @ Tue, 02 Aug 2022 13:07:16: 33000000 INFO @ Tue, 02 Aug 2022 13:07:16: 26000000 INFO @ Tue, 02 Aug 2022 13:07:22: 30000000 INFO @ Tue, 02 Aug 2022 13:07:25: 27000000 INFO @ Tue, 02 Aug 2022 13:07:25: 34000000 INFO @ Tue, 02 Aug 2022 13:07:31: 31000000 INFO @ Tue, 02 Aug 2022 13:07:34: 28000000 INFO @ Tue, 02 Aug 2022 13:07:34: 35000000 INFO @ Tue, 02 Aug 2022 13:07:40: 32000000 INFO @ Tue, 02 Aug 2022 13:07:43: 29000000 INFO @ Tue, 02 Aug 2022 13:07:43: 36000000 INFO @ Tue, 02 Aug 2022 13:07:49: 33000000 INFO @ Tue, 02 Aug 2022 13:07:52: 37000000 INFO @ Tue, 02 Aug 2022 13:07:52: 30000000 INFO @ Tue, 02 Aug 2022 13:07:58: 34000000 INFO @ Tue, 02 Aug 2022 13:08:01: 31000000 INFO @ Tue, 02 Aug 2022 13:08:02: 38000000 INFO @ Tue, 02 Aug 2022 13:08:08: 35000000 INFO @ Tue, 02 Aug 2022 13:08:11: 32000000 INFO @ Tue, 02 Aug 2022 13:08:11: 39000000 INFO @ Tue, 02 Aug 2022 13:08:17: 36000000 INFO @ Tue, 02 Aug 2022 13:08:20: 33000000 INFO @ Tue, 02 Aug 2022 13:08:20: 40000000 INFO @ Tue, 02 Aug 2022 13:08:25: 37000000 INFO @ Tue, 02 Aug 2022 13:08:29: 41000000 INFO @ Tue, 02 Aug 2022 13:08:29: 34000000 INFO @ Tue, 02 Aug 2022 13:08:34: 38000000 INFO @ Tue, 02 Aug 2022 13:08:38: 35000000 INFO @ Tue, 02 Aug 2022 13:08:38: 42000000 INFO @ Tue, 02 Aug 2022 13:08:43: 39000000 INFO @ Tue, 02 Aug 2022 13:08:47: 36000000 INFO @ Tue, 02 Aug 2022 13:08:47: 43000000 INFO @ Tue, 02 Aug 2022 13:08:52: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 13:08:56: 44000000 INFO @ Tue, 02 Aug 2022 13:08:56: 37000000 INFO @ Tue, 02 Aug 2022 13:09:02: 41000000 INFO @ Tue, 02 Aug 2022 13:09:05: 45000000 INFO @ Tue, 02 Aug 2022 13:09:05: 38000000 INFO @ Tue, 02 Aug 2022 13:09:11: 42000000 INFO @ Tue, 02 Aug 2022 13:09:14: 46000000 INFO @ Tue, 02 Aug 2022 13:09:14: 39000000 INFO @ Tue, 02 Aug 2022 13:09:19: 43000000 INFO @ Tue, 02 Aug 2022 13:09:23: 47000000 INFO @ Tue, 02 Aug 2022 13:09:23: 40000000 INFO @ Tue, 02 Aug 2022 13:09:28: 44000000 INFO @ Tue, 02 Aug 2022 13:09:31: 48000000 INFO @ Tue, 02 Aug 2022 13:09:32: 41000000 INFO @ Tue, 02 Aug 2022 13:09:37: 45000000 INFO @ Tue, 02 Aug 2022 13:09:40: 49000000 INFO @ Tue, 02 Aug 2022 13:09:41: 42000000 INFO @ Tue, 02 Aug 2022 13:09:45: 46000000 INFO @ Tue, 02 Aug 2022 13:09:49: 50000000 INFO @ Tue, 02 Aug 2022 13:09:49: 43000000 INFO @ Tue, 02 Aug 2022 13:09:54: 47000000 INFO @ Tue, 02 Aug 2022 13:09:58: 51000000 INFO @ Tue, 02 Aug 2022 13:09:58: 44000000 INFO @ Tue, 02 Aug 2022 13:10:03: 48000000 INFO @ Tue, 02 Aug 2022 13:10:07: 45000000 INFO @ Tue, 02 Aug 2022 13:10:08: 52000000 INFO @ Tue, 02 Aug 2022 13:10:11: 49000000 INFO @ Tue, 02 Aug 2022 13:10:16: 46000000 INFO @ Tue, 02 Aug 2022 13:10:17: 53000000 INFO @ Tue, 02 Aug 2022 13:10:20: 50000000 INFO @ Tue, 02 Aug 2022 13:10:25: 47000000 INFO @ Tue, 02 Aug 2022 13:10:26: 54000000 INFO @ Tue, 02 Aug 2022 13:10:29: 51000000 INFO @ Tue, 02 Aug 2022 13:10:34: 48000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 13:10:35: 55000000 INFO @ Tue, 02 Aug 2022 13:10:38: 52000000 INFO @ Tue, 02 Aug 2022 13:10:44: 49000000 INFO @ Tue, 02 Aug 2022 13:10:44: 56000000 INFO @ Tue, 02 Aug 2022 13:10:47: 53000000 INFO @ Tue, 02 Aug 2022 13:10:52: 50000000 INFO @ Tue, 02 Aug 2022 13:10:53: 57000000 INFO @ Tue, 02 Aug 2022 13:10:56: 54000000 INFO @ Tue, 02 Aug 2022 13:11:01: 51000000 INFO @ Tue, 02 Aug 2022 13:11:02: 58000000 INFO @ Tue, 02 Aug 2022 13:11:05: 55000000 INFO @ Tue, 02 Aug 2022 13:11:10: 52000000 INFO @ Tue, 02 Aug 2022 13:11:11: 59000000 INFO @ Tue, 02 Aug 2022 13:11:14: 56000000 INFO @ Tue, 02 Aug 2022 13:11:19: 53000000 INFO @ Tue, 02 Aug 2022 13:11:20: 60000000 INFO @ Tue, 02 Aug 2022 13:11:23: 57000000 INFO @ Tue, 02 Aug 2022 13:11:28: 54000000 INFO @ Tue, 02 Aug 2022 13:11:30: 61000000 INFO @ Tue, 02 Aug 2022 13:11:32: 58000000 INFO @ Tue, 02 Aug 2022 13:11:37: 55000000 INFO @ Tue, 02 Aug 2022 13:11:40: 62000000 INFO @ Tue, 02 Aug 2022 13:11:41: 59000000 INFO @ Tue, 02 Aug 2022 13:11:46: 56000000 INFO @ Tue, 02 Aug 2022 13:11:49: 63000000 INFO @ Tue, 02 Aug 2022 13:11:50: 60000000 INFO @ Tue, 02 Aug 2022 13:11:55: 57000000 INFO @ Tue, 02 Aug 2022 13:11:59: 64000000 INFO @ Tue, 02 Aug 2022 13:11:59: 61000000 INFO @ Tue, 02 Aug 2022 13:12:04: 58000000 INFO @ Tue, 02 Aug 2022 13:12:07: 65000000 INFO @ Tue, 02 Aug 2022 13:12:08: 62000000 INFO @ Tue, 02 Aug 2022 13:12:13: 59000000 INFO @ Tue, 02 Aug 2022 13:12:16: 66000000 INFO @ Tue, 02 Aug 2022 13:12:17: 63000000 INFO @ Tue, 02 Aug 2022 13:12:22: 60000000 INFO @ Tue, 02 Aug 2022 13:12:25: 67000000 INFO @ Tue, 02 Aug 2022 13:12:25: 64000000 INFO @ Tue, 02 Aug 2022 13:12:31: 61000000 INFO @ Tue, 02 Aug 2022 13:12:34: 65000000 INFO @ Tue, 02 Aug 2022 13:12:34: 68000000 INFO @ Tue, 02 Aug 2022 13:12:40: 62000000 INFO @ Tue, 02 Aug 2022 13:12:43: 66000000 INFO @ Tue, 02 Aug 2022 13:12:43: 69000000 INFO @ Tue, 02 Aug 2022 13:12:49: 63000000 INFO @ Tue, 02 Aug 2022 13:12:51: 67000000 INFO @ Tue, 02 Aug 2022 13:12:52: 70000000 INFO @ Tue, 02 Aug 2022 13:12:58: 64000000 INFO @ Tue, 02 Aug 2022 13:13:00: 68000000 INFO @ Tue, 02 Aug 2022 13:13:01: 71000000 INFO @ Tue, 02 Aug 2022 13:13:06: 65000000 INFO @ Tue, 02 Aug 2022 13:13:09: 69000000 INFO @ Tue, 02 Aug 2022 13:13:09: 72000000 INFO @ Tue, 02 Aug 2022 13:13:11: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:13:11: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:13:11: #1 total tags in treatment: 27827806 INFO @ Tue, 02 Aug 2022 13:13:11: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:13:11: #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 13:13:12: #1 tags after filtering in treatment: 17512507 INFO @ Tue, 02 Aug 2022 13:13:12: #1 Redundant rate of treatment: 0.37 INFO @ Tue, 02 Aug 2022 13:13:12: #1 finished! INFO @ Tue, 02 Aug 2022 13:13:12: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:13:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:13:13: #2 number of paired peaks: 588 WARNING @ Tue, 02 Aug 2022 13:13:13: Fewer paired peaks (588) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 588 pairs to build model! INFO @ Tue, 02 Aug 2022 13:13:13: start model_add_line... INFO @ Tue, 02 Aug 2022 13:13:14: start X-correlation... INFO @ Tue, 02 Aug 2022 13:13:14: end of X-cor INFO @ Tue, 02 Aug 2022 13:13:14: #2 finished! INFO @ Tue, 02 Aug 2022 13:13:14: #2 predicted fragment length is 63 bps INFO @ Tue, 02 Aug 2022 13:13:14: #2 alternative fragment length(s) may be 4,15,63 bps INFO @ Tue, 02 Aug 2022 13:13:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05_model.r WARNING @ Tue, 02 Aug 2022 13:13:14: #2 Since the d (63) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:13:14: #2 You may need to consider one of the other alternative d(s): 4,15,63 WARNING @ Tue, 02 Aug 2022 13:13:14: #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 13:13:14: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:13:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:13:15: 66000000 INFO @ Tue, 02 Aug 2022 13:13:17: 70000000 INFO @ Tue, 02 Aug 2022 13:13:23: 67000000 INFO @ Tue, 02 Aug 2022 13:13:25: 71000000 INFO @ Tue, 02 Aug 2022 13:13:32: 68000000 INFO @ Tue, 02 Aug 2022 13:13:33: 72000000 INFO @ Tue, 02 Aug 2022 13:13:35: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:13:35: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:13:35: #1 total tags in treatment: 27827806 INFO @ Tue, 02 Aug 2022 13:13:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:13:35: #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 13:13:36: #1 tags after filtering in treatment: 17512507 INFO @ Tue, 02 Aug 2022 13:13:36: #1 Redundant rate of treatment: 0.37 INFO @ Tue, 02 Aug 2022 13:13:36: #1 finished! INFO @ Tue, 02 Aug 2022 13:13:36: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:13:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:13:37: #2 number of paired peaks: 588 WARNING @ Tue, 02 Aug 2022 13:13:37: Fewer paired peaks (588) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 588 pairs to build model! INFO @ Tue, 02 Aug 2022 13:13:37: start model_add_line... INFO @ Tue, 02 Aug 2022 13:13:37: start X-correlation... INFO @ Tue, 02 Aug 2022 13:13:37: end of X-cor INFO @ Tue, 02 Aug 2022 13:13:37: #2 finished! INFO @ Tue, 02 Aug 2022 13:13:37: #2 predicted fragment length is 63 bps INFO @ Tue, 02 Aug 2022 13:13:37: #2 alternative fragment length(s) may be 4,15,63 bps INFO @ Tue, 02 Aug 2022 13:13:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10_model.r WARNING @ Tue, 02 Aug 2022 13:13:37: #2 Since the d (63) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:13:37: #2 You may need to consider one of the other alternative d(s): 4,15,63 WARNING @ Tue, 02 Aug 2022 13:13:37: #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 13:13:37: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:13:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:13:40: 69000000 INFO @ Tue, 02 Aug 2022 13:13:47: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:13:49: 70000000 INFO @ Tue, 02 Aug 2022 13:13:57: 71000000 INFO @ Tue, 02 Aug 2022 13:14:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05_peaks.xls INFO @ Tue, 02 Aug 2022 13:14:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:14:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.05_summits.bed INFO @ Tue, 02 Aug 2022 13:14:06: 72000000 INFO @ Tue, 02 Aug 2022 13:14:06: Done! pass1 - making usageList (15 chroms): 4 millis pass2 - checking and writing primary data (21001 records, 4 fields): 60 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:14:08: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:14:08: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:14:08: #1 total tags in treatment: 27827806 INFO @ Tue, 02 Aug 2022 13:14:08: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:14:08: #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 13:14:08: #1 tags after filtering in treatment: 17512507 INFO @ Tue, 02 Aug 2022 13:14:08: #1 Redundant rate of treatment: 0.37 INFO @ Tue, 02 Aug 2022 13:14:08: #1 finished! INFO @ Tue, 02 Aug 2022 13:14:08: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:14:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:14:10: #2 number of paired peaks: 588 WARNING @ Tue, 02 Aug 2022 13:14:10: Fewer paired peaks (588) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 588 pairs to build model! INFO @ Tue, 02 Aug 2022 13:14:10: start model_add_line... INFO @ Tue, 02 Aug 2022 13:14:10: start X-correlation... INFO @ Tue, 02 Aug 2022 13:14:10: end of X-cor INFO @ Tue, 02 Aug 2022 13:14:10: #2 finished! INFO @ Tue, 02 Aug 2022 13:14:10: #2 predicted fragment length is 63 bps INFO @ Tue, 02 Aug 2022 13:14:10: #2 alternative fragment length(s) may be 4,15,63 bps INFO @ Tue, 02 Aug 2022 13:14:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20_model.r WARNING @ Tue, 02 Aug 2022 13:14:10: #2 Since the d (63) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:14:10: #2 You may need to consider one of the other alternative d(s): 4,15,63 WARNING @ Tue, 02 Aug 2022 13:14:10: #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 13:14:10: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:14:10: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:14:10: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:14:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10_peaks.xls INFO @ Tue, 02 Aug 2022 13:14:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:14:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.10_summits.bed INFO @ Tue, 02 Aug 2022 13:14:28: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10036 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:14:42: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:15:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20_peaks.xls INFO @ Tue, 02 Aug 2022 13:15:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:15:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178864/SRX12178864.20_summits.bed INFO @ Tue, 02 Aug 2022 13:15:00: Done! pass1 - making usageList (12 chroms): 0 millis pass2 - checking and writing primary data (1224 records, 4 fields): 34 millis CompletedMACS2peakCalling