Job ID = 16436259 SRX = SRX12178890 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:14:44 prefetch.2.10.7: 1) Downloading 'SRR15888024'... 2022-08-02T02:14:44 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:17:42 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:17:42 prefetch.2.10.7: 1) 'SRR15888024' was downloaded successfully 2022-08-02T02:17:42 prefetch.2.10.7: 'SRR15888024' has 0 unresolved dependencies Read 51234540 spots for SRR15888024/SRR15888024.sra Written 51234540 spots for SRR15888024/SRR15888024.sra fastq に変換しました。 bowtie でマッピング中... Your job 16437454 ("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: 01:04:09 51234540 reads; of these: 51234540 (100.00%) were paired; of these: 15532436 (30.32%) aligned concordantly 0 times 30792856 (60.10%) aligned concordantly exactly 1 time 4909248 (9.58%) aligned concordantly >1 times ---- 15532436 pairs aligned concordantly 0 times; of these: 6286655 (40.47%) aligned discordantly 1 time ---- 9245781 pairs aligned 0 times concordantly or discordantly; of these: 18491562 mates make up the pairs; of these: 10772290 (58.26%) aligned 0 times 5861232 (31.70%) aligned exactly 1 time 1858040 (10.05%) aligned >1 times 89.49% overall alignment rate Time searching: 01:04:09 Overall time: 01:04:09 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 40 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] 8139306 / 41848063 = 0.1945 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 12:55:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.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 12:55:38: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:55:38: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:55:48: 1000000 INFO @ Tue, 02 Aug 2022 12:55:58: 2000000 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 12:56:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.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 12:56:08: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:56:08: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:56:08: 3000000 INFO @ Tue, 02 Aug 2022 12:56:18: 4000000 INFO @ Tue, 02 Aug 2022 12:56:19: 1000000 INFO @ Tue, 02 Aug 2022 12:56:28: 2000000 INFO @ Tue, 02 Aug 2022 12:56:28: 5000000 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 12:56:37: 3000000 INFO @ Tue, 02 Aug 2022 12:56:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.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 12:56:38: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:56:38: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:56:39: 6000000 INFO @ Tue, 02 Aug 2022 12:56:46: 4000000 INFO @ Tue, 02 Aug 2022 12:56:47: 1000000 INFO @ Tue, 02 Aug 2022 12:56:49: 7000000 INFO @ Tue, 02 Aug 2022 12:56:55: 5000000 INFO @ Tue, 02 Aug 2022 12:56:57: 2000000 INFO @ Tue, 02 Aug 2022 12:56:59: 8000000 INFO @ Tue, 02 Aug 2022 12:57:04: 6000000 INFO @ Tue, 02 Aug 2022 12:57:05: 3000000 INFO @ Tue, 02 Aug 2022 12:57:10: 9000000 INFO @ Tue, 02 Aug 2022 12:57:13: 7000000 INFO @ Tue, 02 Aug 2022 12:57:14: 4000000 INFO @ Tue, 02 Aug 2022 12:57:20: 10000000 INFO @ Tue, 02 Aug 2022 12:57:21: 8000000 INFO @ Tue, 02 Aug 2022 12:57:23: 5000000 INFO @ Tue, 02 Aug 2022 12:57:30: 9000000 INFO @ Tue, 02 Aug 2022 12:57:30: 11000000 INFO @ Tue, 02 Aug 2022 12:57:31: 6000000 INFO @ Tue, 02 Aug 2022 12:57:39: 10000000 INFO @ Tue, 02 Aug 2022 12:57:40: 7000000 INFO @ Tue, 02 Aug 2022 12:57:40: 12000000 INFO @ Tue, 02 Aug 2022 12:57:47: 11000000 INFO @ Tue, 02 Aug 2022 12:57:49: 8000000 INFO @ Tue, 02 Aug 2022 12:57:50: 13000000 INFO @ Tue, 02 Aug 2022 12:57:56: 12000000 INFO @ Tue, 02 Aug 2022 12:57:57: 9000000 INFO @ Tue, 02 Aug 2022 12:58:01: 14000000 INFO @ Tue, 02 Aug 2022 12:58:04: 13000000 INFO @ Tue, 02 Aug 2022 12:58:06: 10000000 INFO @ Tue, 02 Aug 2022 12:58:11: 15000000 INFO @ Tue, 02 Aug 2022 12:58:13: 14000000 INFO @ Tue, 02 Aug 2022 12:58:14: 11000000 INFO @ Tue, 02 Aug 2022 12:58:21: 16000000 INFO @ Tue, 02 Aug 2022 12:58:22: 15000000 INFO @ Tue, 02 Aug 2022 12:58:23: 12000000 INFO @ Tue, 02 Aug 2022 12:58:30: 17000000 INFO @ Tue, 02 Aug 2022 12:58:31: 16000000 INFO @ Tue, 02 Aug 2022 12:58:32: 13000000 INFO @ Tue, 02 Aug 2022 12:58:39: 17000000 INFO @ Tue, 02 Aug 2022 12:58:40: 14000000 INFO @ Tue, 02 Aug 2022 12:58:40: 18000000 INFO @ Tue, 02 Aug 2022 12:58:48: 18000000 INFO @ Tue, 02 Aug 2022 12:58:49: 15000000 INFO @ Tue, 02 Aug 2022 12:58:50: 19000000 INFO @ Tue, 02 Aug 2022 12:58:56: 19000000 INFO @ Tue, 02 Aug 2022 12:58:57: 16000000 INFO @ Tue, 02 Aug 2022 12:59:00: 20000000 INFO @ Tue, 02 Aug 2022 12:59:05: 20000000 INFO @ Tue, 02 Aug 2022 12:59:06: 17000000 INFO @ Tue, 02 Aug 2022 12:59:10: 21000000 INFO @ Tue, 02 Aug 2022 12:59:13: 21000000 INFO @ Tue, 02 Aug 2022 12:59:15: 18000000 INFO @ Tue, 02 Aug 2022 12:59:20: 22000000 INFO @ Tue, 02 Aug 2022 12:59:22: 22000000 INFO @ Tue, 02 Aug 2022 12:59:23: 19000000 INFO @ Tue, 02 Aug 2022 12:59:30: 23000000 INFO @ Tue, 02 Aug 2022 12:59:31: 23000000 INFO @ Tue, 02 Aug 2022 12:59:32: 20000000 INFO @ Tue, 02 Aug 2022 12:59:39: 24000000 INFO @ Tue, 02 Aug 2022 12:59:40: 24000000 INFO @ Tue, 02 Aug 2022 12:59:40: 21000000 INFO @ Tue, 02 Aug 2022 12:59:48: 25000000 INFO @ Tue, 02 Aug 2022 12:59:49: 22000000 INFO @ Tue, 02 Aug 2022 12:59:49: 25000000 INFO @ Tue, 02 Aug 2022 12:59:56: 26000000 INFO @ Tue, 02 Aug 2022 12:59:58: 23000000 INFO @ Tue, 02 Aug 2022 12:59:59: 26000000 INFO @ Tue, 02 Aug 2022 13:00:05: 27000000 INFO @ Tue, 02 Aug 2022 13:00:06: 24000000 INFO @ Tue, 02 Aug 2022 13:00:09: 27000000 INFO @ Tue, 02 Aug 2022 13:00:14: 28000000 INFO @ Tue, 02 Aug 2022 13:00:15: 25000000 INFO @ Tue, 02 Aug 2022 13:00:19: 28000000 INFO @ Tue, 02 Aug 2022 13:00:23: 29000000 INFO @ Tue, 02 Aug 2022 13:00:24: 26000000 INFO @ Tue, 02 Aug 2022 13:00:28: 29000000 INFO @ Tue, 02 Aug 2022 13:00:32: 30000000 INFO @ Tue, 02 Aug 2022 13:00:33: 27000000 INFO @ Tue, 02 Aug 2022 13:00:39: 30000000 INFO @ Tue, 02 Aug 2022 13:00:41: 31000000 INFO @ Tue, 02 Aug 2022 13:00:42: 28000000 INFO @ Tue, 02 Aug 2022 13:00:49: 31000000 INFO @ Tue, 02 Aug 2022 13:00:50: 32000000 INFO @ Tue, 02 Aug 2022 13:00:51: 29000000 INFO @ Tue, 02 Aug 2022 13:00:59: 33000000 INFO @ Tue, 02 Aug 2022 13:00:59: 32000000 INFO @ Tue, 02 Aug 2022 13:01:00: 30000000 INFO @ Tue, 02 Aug 2022 13:01:09: 34000000 INFO @ Tue, 02 Aug 2022 13:01:10: 31000000 INFO @ Tue, 02 Aug 2022 13:01:10: 33000000 INFO @ Tue, 02 Aug 2022 13:01:18: 35000000 INFO @ Tue, 02 Aug 2022 13:01:19: 32000000 INFO @ Tue, 02 Aug 2022 13:01:21: 34000000 INFO @ Tue, 02 Aug 2022 13:01:28: 36000000 INFO @ Tue, 02 Aug 2022 13:01:28: 33000000 INFO @ Tue, 02 Aug 2022 13:01:31: 35000000 INFO @ Tue, 02 Aug 2022 13:01:38: 37000000 INFO @ Tue, 02 Aug 2022 13:01:38: 34000000 INFO @ Tue, 02 Aug 2022 13:01:42: 36000000 INFO @ Tue, 02 Aug 2022 13:01:47: 38000000 INFO @ Tue, 02 Aug 2022 13:01:47: 35000000 INFO @ Tue, 02 Aug 2022 13:01:52: 37000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 13:01:57: 39000000 INFO @ Tue, 02 Aug 2022 13:01:57: 36000000 INFO @ Tue, 02 Aug 2022 13:02:03: 38000000 INFO @ Tue, 02 Aug 2022 13:02:06: 40000000 INFO @ Tue, 02 Aug 2022 13:02:06: 37000000 INFO @ Tue, 02 Aug 2022 13:02:14: 39000000 INFO @ Tue, 02 Aug 2022 13:02:16: 38000000 INFO @ Tue, 02 Aug 2022 13:02:16: 41000000 INFO @ Tue, 02 Aug 2022 13:02:25: 40000000 INFO @ Tue, 02 Aug 2022 13:02:25: 39000000 INFO @ Tue, 02 Aug 2022 13:02:26: 42000000 INFO @ Tue, 02 Aug 2022 13:02:35: 41000000 INFO @ Tue, 02 Aug 2022 13:02:35: 40000000 INFO @ Tue, 02 Aug 2022 13:02:36: 43000000 INFO @ Tue, 02 Aug 2022 13:02:45: 41000000 INFO @ Tue, 02 Aug 2022 13:02:46: 42000000 INFO @ Tue, 02 Aug 2022 13:02:46: 44000000 INFO @ Tue, 02 Aug 2022 13:02:55: 42000000 INFO @ Tue, 02 Aug 2022 13:02:56: 45000000 INFO @ Tue, 02 Aug 2022 13:02:57: 43000000 INFO @ Tue, 02 Aug 2022 13:03:05: 43000000 INFO @ Tue, 02 Aug 2022 13:03:05: 46000000 INFO @ Tue, 02 Aug 2022 13:03:08: 44000000 INFO @ Tue, 02 Aug 2022 13:03:15: 44000000 INFO @ Tue, 02 Aug 2022 13:03:15: 47000000 INFO @ Tue, 02 Aug 2022 13:03:19: 45000000 INFO @ Tue, 02 Aug 2022 13:03:24: 45000000 INFO @ Tue, 02 Aug 2022 13:03:25: 48000000 INFO @ Tue, 02 Aug 2022 13:03:29: 46000000 INFO @ Tue, 02 Aug 2022 13:03:34: 46000000 INFO @ Tue, 02 Aug 2022 13:03:35: 49000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 13:03:40: 47000000 INFO @ Tue, 02 Aug 2022 13:03:44: 47000000 INFO @ Tue, 02 Aug 2022 13:03:45: 50000000 INFO @ Tue, 02 Aug 2022 13:03:51: 48000000 INFO @ Tue, 02 Aug 2022 13:03:54: 48000000 INFO @ Tue, 02 Aug 2022 13:03:55: 51000000 INFO @ Tue, 02 Aug 2022 13:04:02: 49000000 INFO @ Tue, 02 Aug 2022 13:04:04: 49000000 INFO @ Tue, 02 Aug 2022 13:04:04: 52000000 INFO @ Tue, 02 Aug 2022 13:04:13: 50000000 INFO @ Tue, 02 Aug 2022 13:04:14: 50000000 INFO @ Tue, 02 Aug 2022 13:04:14: 53000000 INFO @ Tue, 02 Aug 2022 13:04:23: 51000000 INFO @ Tue, 02 Aug 2022 13:04:24: 51000000 INFO @ Tue, 02 Aug 2022 13:04:24: 54000000 INFO @ Tue, 02 Aug 2022 13:04:33: 52000000 INFO @ Tue, 02 Aug 2022 13:04:34: 55000000 INFO @ Tue, 02 Aug 2022 13:04:34: 52000000 INFO @ Tue, 02 Aug 2022 13:04:43: 53000000 INFO @ Tue, 02 Aug 2022 13:04:43: 56000000 INFO @ Tue, 02 Aug 2022 13:04:44: 53000000 INFO @ Tue, 02 Aug 2022 13:04:52: 54000000 INFO @ Tue, 02 Aug 2022 13:04:53: 57000000 INFO @ Tue, 02 Aug 2022 13:04:55: 54000000 INFO @ Tue, 02 Aug 2022 13:05:02: 55000000 INFO @ Tue, 02 Aug 2022 13:05:02: 58000000 INFO @ Tue, 02 Aug 2022 13:05:06: 55000000 INFO @ Tue, 02 Aug 2022 13:05:11: 56000000 INFO @ Tue, 02 Aug 2022 13:05:12: 59000000 INFO @ Tue, 02 Aug 2022 13:05:16: 56000000 INFO @ Tue, 02 Aug 2022 13:05:20: 57000000 INFO @ Tue, 02 Aug 2022 13:05:22: 60000000 INFO @ Tue, 02 Aug 2022 13:05:27: 57000000 INFO @ Tue, 02 Aug 2022 13:05:30: 58000000 INFO @ Tue, 02 Aug 2022 13:05:31: 61000000 INFO @ Tue, 02 Aug 2022 13:05:38: 58000000 INFO @ Tue, 02 Aug 2022 13:05:39: 59000000 INFO @ Tue, 02 Aug 2022 13:05:41: 62000000 INFO @ Tue, 02 Aug 2022 13:05:48: 60000000 INFO @ Tue, 02 Aug 2022 13:05:48: 59000000 INFO @ Tue, 02 Aug 2022 13:05:50: 63000000 INFO @ Tue, 02 Aug 2022 13:05:58: 61000000 INFO @ Tue, 02 Aug 2022 13:05:58: 60000000 INFO @ Tue, 02 Aug 2022 13:06:00: 64000000 INFO @ Tue, 02 Aug 2022 13:06:07: 62000000 INFO @ Tue, 02 Aug 2022 13:06:09: 61000000 INFO @ Tue, 02 Aug 2022 13:06:09: 65000000 INFO @ Tue, 02 Aug 2022 13:06:16: 63000000 INFO @ Tue, 02 Aug 2022 13:06:19: 66000000 INFO @ Tue, 02 Aug 2022 13:06:19: 62000000 INFO @ Tue, 02 Aug 2022 13:06:26: 64000000 INFO @ Tue, 02 Aug 2022 13:06:28: 67000000 INFO @ Tue, 02 Aug 2022 13:06:30: 63000000 INFO @ Tue, 02 Aug 2022 13:06:35: 65000000 INFO @ Tue, 02 Aug 2022 13:06:37: 68000000 INFO @ Tue, 02 Aug 2022 13:06:41: 64000000 INFO @ Tue, 02 Aug 2022 13:06:44: 66000000 INFO @ Tue, 02 Aug 2022 13:06:46: 69000000 INFO @ Tue, 02 Aug 2022 13:06:51: 65000000 INFO @ Tue, 02 Aug 2022 13:06:53: 67000000 INFO @ Tue, 02 Aug 2022 13:06:55: 70000000 INFO @ Tue, 02 Aug 2022 13:07:01: 66000000 INFO @ Tue, 02 Aug 2022 13:07:02: 68000000 INFO @ Tue, 02 Aug 2022 13:07:04: 71000000 INFO @ Tue, 02 Aug 2022 13:07:11: 67000000 INFO @ Tue, 02 Aug 2022 13:07:11: 69000000 INFO @ Tue, 02 Aug 2022 13:07:13: 72000000 INFO @ Tue, 02 Aug 2022 13:07:20: 70000000 INFO @ Tue, 02 Aug 2022 13:07:21: 68000000 INFO @ Tue, 02 Aug 2022 13:07:22: 73000000 INFO @ Tue, 02 Aug 2022 13:07:29: 71000000 INFO @ Tue, 02 Aug 2022 13:07:31: 74000000 INFO @ Tue, 02 Aug 2022 13:07:31: 69000000 INFO @ Tue, 02 Aug 2022 13:07:37: 72000000 INFO @ Tue, 02 Aug 2022 13:07:39: 75000000 INFO @ Tue, 02 Aug 2022 13:07:41: 70000000 INFO @ Tue, 02 Aug 2022 13:07:43: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:07:43: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:07:43: #1 total tags in treatment: 28321567 INFO @ Tue, 02 Aug 2022 13:07:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:07:43: #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 13:07:43: #1 tags after filtering in treatment: 17362173 INFO @ Tue, 02 Aug 2022 13:07:43: #1 Redundant rate of treatment: 0.39 INFO @ Tue, 02 Aug 2022 13:07:43: #1 finished! INFO @ Tue, 02 Aug 2022 13:07:43: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:07:45: #2 number of paired peaks: 685 WARNING @ Tue, 02 Aug 2022 13:07:45: Fewer paired peaks (685) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 685 pairs to build model! INFO @ Tue, 02 Aug 2022 13:07:45: start model_add_line... INFO @ Tue, 02 Aug 2022 13:07:45: start X-correlation... INFO @ Tue, 02 Aug 2022 13:07:45: end of X-cor INFO @ Tue, 02 Aug 2022 13:07:45: #2 finished! INFO @ Tue, 02 Aug 2022 13:07:45: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 13:07:45: #2 alternative fragment length(s) may be 4,53 bps INFO @ Tue, 02 Aug 2022 13:07:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10_model.r WARNING @ Tue, 02 Aug 2022 13:07:45: #2 Since the d (53) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:07:45: #2 You may need to consider one of the other alternative d(s): 4,53 WARNING @ Tue, 02 Aug 2022 13:07:45: #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 13:07:45: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:07:45: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:07:46: 73000000 INFO @ Tue, 02 Aug 2022 13:07:51: 71000000 INFO @ Tue, 02 Aug 2022 13:07:54: 74000000 INFO @ Tue, 02 Aug 2022 13:08:00: 72000000 INFO @ Tue, 02 Aug 2022 13:08:02: 75000000 INFO @ Tue, 02 Aug 2022 13:08:05: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:08:05: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:08:05: #1 total tags in treatment: 28321567 INFO @ Tue, 02 Aug 2022 13:08:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:08:05: #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 13:08:06: #1 tags after filtering in treatment: 17362173 INFO @ Tue, 02 Aug 2022 13:08:06: #1 Redundant rate of treatment: 0.39 INFO @ Tue, 02 Aug 2022 13:08:06: #1 finished! INFO @ Tue, 02 Aug 2022 13:08:06: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:08:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:08:07: #2 number of paired peaks: 685 WARNING @ Tue, 02 Aug 2022 13:08:07: Fewer paired peaks (685) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 685 pairs to build model! INFO @ Tue, 02 Aug 2022 13:08:07: start model_add_line... INFO @ Tue, 02 Aug 2022 13:08:07: start X-correlation... INFO @ Tue, 02 Aug 2022 13:08:08: end of X-cor INFO @ Tue, 02 Aug 2022 13:08:08: #2 finished! INFO @ Tue, 02 Aug 2022 13:08:08: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 13:08:08: #2 alternative fragment length(s) may be 4,53 bps INFO @ Tue, 02 Aug 2022 13:08:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20_model.r WARNING @ Tue, 02 Aug 2022 13:08:08: #2 Since the d (53) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:08:08: #2 You may need to consider one of the other alternative d(s): 4,53 WARNING @ Tue, 02 Aug 2022 13:08:08: #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 13:08:08: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:08:08: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:08:10: 73000000 INFO @ Tue, 02 Aug 2022 13:08:17: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:08:19: 74000000 INFO @ Tue, 02 Aug 2022 13:08:29: 75000000 INFO @ Tue, 02 Aug 2022 13:08:33: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:08:33: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:08:33: #1 total tags in treatment: 28321567 INFO @ Tue, 02 Aug 2022 13:08:33: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:08:33: #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 13:08:33: #1 tags after filtering in treatment: 17362173 INFO @ Tue, 02 Aug 2022 13:08:33: #1 Redundant rate of treatment: 0.39 INFO @ Tue, 02 Aug 2022 13:08:33: #1 finished! INFO @ Tue, 02 Aug 2022 13:08:33: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:08:33: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:08:35: #2 number of paired peaks: 685 WARNING @ Tue, 02 Aug 2022 13:08:35: Fewer paired peaks (685) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 685 pairs to build model! INFO @ Tue, 02 Aug 2022 13:08:35: start model_add_line... INFO @ Tue, 02 Aug 2022 13:08:35: start X-correlation... INFO @ Tue, 02 Aug 2022 13:08:35: end of X-cor INFO @ Tue, 02 Aug 2022 13:08:35: #2 finished! INFO @ Tue, 02 Aug 2022 13:08:35: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 13:08:35: #2 alternative fragment length(s) may be 4,53 bps INFO @ Tue, 02 Aug 2022 13:08:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05_model.r INFO @ Tue, 02 Aug 2022 13:08:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10_peaks.xls WARNING @ Tue, 02 Aug 2022 13:08:35: #2 Since the d (53) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:08:35: #2 You may need to consider one of the other alternative d(s): 4,53 WARNING @ Tue, 02 Aug 2022 13:08:35: #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 13:08:35: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:08:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:08:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:08:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.10_summits.bed INFO @ Tue, 02 Aug 2022 13:08:35: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9329 records, 4 fields): 74 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:08:40: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:08:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20_peaks.xls INFO @ Tue, 02 Aug 2022 13:08:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:08:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.20_summits.bed INFO @ Tue, 02 Aug 2022 13:08:57: Done! pass1 - making usageList (9 chroms): 1 millis pass2 - checking and writing primary data (659 records, 4 fields): 111 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:09:07: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:09:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05_peaks.xls INFO @ Tue, 02 Aug 2022 13:09:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:09:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178890/SRX12178890.05_summits.bed INFO @ Tue, 02 Aug 2022 13:09:26: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (21691 records, 4 fields): 84 millis CompletedMACS2peakCalling