Job ID = 16436221 SRX = SRX12178867 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:08:07 prefetch.2.10.7: 1) Downloading 'SRR15888047'... 2022-08-02T02:08:07 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:11:29 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:11:29 prefetch.2.10.7: 1) 'SRR15888047' was downloaded successfully 2022-08-02T02:11:29 prefetch.2.10.7: 'SRR15888047' has 0 unresolved dependencies Read 51304008 spots for SRR15888047/SRR15888047.sra Written 51304008 spots for SRR15888047/SRR15888047.sra fastq に変換しました。 bowtie でマッピング中... Your job 16437457 ("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: 01:12:00 51304008 reads; of these: 51304008 (100.00%) were paired; of these: 15073010 (29.38%) aligned concordantly 0 times 25317335 (49.35%) aligned concordantly exactly 1 time 10913663 (21.27%) aligned concordantly >1 times ---- 15073010 pairs aligned concordantly 0 times; of these: 5607766 (37.20%) aligned discordantly 1 time ---- 9465244 pairs aligned 0 times concordantly or discordantly; of these: 18930488 mates make up the pairs; of these: 11682619 (61.71%) aligned 0 times 4449032 (23.50%) aligned exactly 1 time 2798837 (14.78%) aligned >1 times 88.61% overall alignment rate Time searching: 01:12:00 Overall time: 01:12:00 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] 10078340 / 41671174 = 0.2419 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 12:55:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.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 12:55:39: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:55:39: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:55:45: 1000000 INFO @ Tue, 02 Aug 2022 12:55:52: 2000000 INFO @ Tue, 02 Aug 2022 12:55:59: 3000000 INFO @ Tue, 02 Aug 2022 12:56:06: 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 12:56:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.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 12:56:10: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:56:10: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:56:13: 5000000 INFO @ Tue, 02 Aug 2022 12:56:16: 1000000 INFO @ Tue, 02 Aug 2022 12:56:21: 6000000 INFO @ Tue, 02 Aug 2022 12:56:23: 2000000 INFO @ Tue, 02 Aug 2022 12:56:29: 7000000 INFO @ Tue, 02 Aug 2022 12:56:29: 3000000 INFO @ Tue, 02 Aug 2022 12:56:36: 4000000 INFO @ Tue, 02 Aug 2022 12:56:36: 8000000 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 12:56:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.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 12:56:39: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:56:39: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:56:43: 5000000 INFO @ Tue, 02 Aug 2022 12:56:46: 9000000 INFO @ Tue, 02 Aug 2022 12:56:47: 1000000 INFO @ Tue, 02 Aug 2022 12:56:51: 6000000 INFO @ Tue, 02 Aug 2022 12:56:53: 10000000 INFO @ Tue, 02 Aug 2022 12:56:54: 2000000 INFO @ Tue, 02 Aug 2022 12:56:58: 7000000 INFO @ Tue, 02 Aug 2022 12:57:02: 3000000 INFO @ Tue, 02 Aug 2022 12:57:02: 11000000 INFO @ Tue, 02 Aug 2022 12:57:05: 8000000 INFO @ Tue, 02 Aug 2022 12:57:09: 4000000 INFO @ Tue, 02 Aug 2022 12:57:10: 12000000 INFO @ Tue, 02 Aug 2022 12:57:13: 9000000 INFO @ Tue, 02 Aug 2022 12:57:16: 5000000 INFO @ Tue, 02 Aug 2022 12:57:18: 13000000 INFO @ Tue, 02 Aug 2022 12:57:20: 10000000 INFO @ Tue, 02 Aug 2022 12:57:24: 6000000 INFO @ Tue, 02 Aug 2022 12:57:25: 14000000 INFO @ Tue, 02 Aug 2022 12:57:28: 11000000 INFO @ Tue, 02 Aug 2022 12:57:31: 7000000 INFO @ Tue, 02 Aug 2022 12:57:33: 15000000 INFO @ Tue, 02 Aug 2022 12:57:35: 12000000 INFO @ Tue, 02 Aug 2022 12:57:39: 8000000 INFO @ Tue, 02 Aug 2022 12:57:41: 16000000 INFO @ Tue, 02 Aug 2022 12:57:43: 13000000 INFO @ Tue, 02 Aug 2022 12:57:46: 9000000 INFO @ Tue, 02 Aug 2022 12:57:48: 17000000 INFO @ Tue, 02 Aug 2022 12:57:50: 14000000 INFO @ Tue, 02 Aug 2022 12:57:54: 10000000 INFO @ Tue, 02 Aug 2022 12:57:56: 18000000 INFO @ Tue, 02 Aug 2022 12:57:58: 15000000 INFO @ Tue, 02 Aug 2022 12:58:02: 11000000 INFO @ Tue, 02 Aug 2022 12:58:03: 19000000 INFO @ Tue, 02 Aug 2022 12:58:06: 16000000 INFO @ Tue, 02 Aug 2022 12:58:09: 12000000 INFO @ Tue, 02 Aug 2022 12:58:11: 20000000 INFO @ Tue, 02 Aug 2022 12:58:13: 17000000 INFO @ Tue, 02 Aug 2022 12:58:17: 13000000 INFO @ Tue, 02 Aug 2022 12:58:19: 21000000 INFO @ Tue, 02 Aug 2022 12:58:21: 18000000 INFO @ Tue, 02 Aug 2022 12:58:24: 14000000 INFO @ Tue, 02 Aug 2022 12:58:27: 22000000 INFO @ Tue, 02 Aug 2022 12:58:28: 19000000 INFO @ Tue, 02 Aug 2022 12:58:32: 15000000 INFO @ Tue, 02 Aug 2022 12:58:34: 23000000 INFO @ Tue, 02 Aug 2022 12:58:36: 20000000 INFO @ Tue, 02 Aug 2022 12:58:40: 16000000 INFO @ Tue, 02 Aug 2022 12:58:42: 24000000 INFO @ Tue, 02 Aug 2022 12:58:43: 21000000 INFO @ Tue, 02 Aug 2022 12:58:47: 17000000 INFO @ Tue, 02 Aug 2022 12:58:50: 25000000 INFO @ Tue, 02 Aug 2022 12:58:51: 22000000 INFO @ Tue, 02 Aug 2022 12:58:55: 18000000 INFO @ Tue, 02 Aug 2022 12:58:57: 26000000 INFO @ Tue, 02 Aug 2022 12:58:58: 23000000 INFO @ Tue, 02 Aug 2022 12:59:02: 19000000 INFO @ Tue, 02 Aug 2022 12:59:05: 27000000 INFO @ Tue, 02 Aug 2022 12:59:06: 24000000 INFO @ Tue, 02 Aug 2022 12:59:10: 20000000 INFO @ Tue, 02 Aug 2022 12:59:13: 28000000 INFO @ Tue, 02 Aug 2022 12:59:13: 25000000 INFO @ Tue, 02 Aug 2022 12:59:17: 21000000 INFO @ Tue, 02 Aug 2022 12:59:20: 29000000 INFO @ Tue, 02 Aug 2022 12:59:20: 26000000 INFO @ Tue, 02 Aug 2022 12:59:24: 22000000 INFO @ Tue, 02 Aug 2022 12:59:28: 30000000 INFO @ Tue, 02 Aug 2022 12:59:28: 27000000 INFO @ Tue, 02 Aug 2022 12:59:32: 23000000 INFO @ Tue, 02 Aug 2022 12:59:35: 31000000 INFO @ Tue, 02 Aug 2022 12:59:36: 28000000 INFO @ Tue, 02 Aug 2022 12:59:39: 24000000 INFO @ Tue, 02 Aug 2022 12:59:43: 32000000 INFO @ Tue, 02 Aug 2022 12:59:43: 29000000 INFO @ Tue, 02 Aug 2022 12:59:47: 25000000 INFO @ Tue, 02 Aug 2022 12:59:50: 30000000 INFO @ Tue, 02 Aug 2022 12:59:51: 33000000 INFO @ Tue, 02 Aug 2022 12:59:54: 26000000 INFO @ Tue, 02 Aug 2022 12:59:58: 31000000 INFO @ Tue, 02 Aug 2022 12:59:58: 34000000 INFO @ Tue, 02 Aug 2022 13:00:02: 27000000 INFO @ Tue, 02 Aug 2022 13:00:05: 32000000 INFO @ Tue, 02 Aug 2022 13:00:06: 35000000 INFO @ Tue, 02 Aug 2022 13:00:10: 28000000 INFO @ Tue, 02 Aug 2022 13:00:13: 33000000 INFO @ Tue, 02 Aug 2022 13:00:15: 36000000 INFO @ Tue, 02 Aug 2022 13:00:17: 29000000 INFO @ Tue, 02 Aug 2022 13:00:20: 34000000 INFO @ Tue, 02 Aug 2022 13:00:24: 37000000 INFO @ Tue, 02 Aug 2022 13:00:25: 30000000 INFO @ Tue, 02 Aug 2022 13:00:28: 35000000 INFO @ Tue, 02 Aug 2022 13:00:32: 38000000 INFO @ Tue, 02 Aug 2022 13:00:32: 31000000 INFO @ Tue, 02 Aug 2022 13:00:35: 36000000 INFO @ Tue, 02 Aug 2022 13:00:40: 32000000 INFO @ Tue, 02 Aug 2022 13:00:40: 39000000 INFO @ Tue, 02 Aug 2022 13:00:42: 37000000 INFO @ Tue, 02 Aug 2022 13:00:47: 33000000 INFO @ Tue, 02 Aug 2022 13:00:48: 40000000 INFO @ Tue, 02 Aug 2022 13:00:49: 38000000 INFO @ Tue, 02 Aug 2022 13:00:54: 34000000 INFO @ Tue, 02 Aug 2022 13:00:56: 41000000 INFO @ Tue, 02 Aug 2022 13:00:56: 39000000 INFO @ Tue, 02 Aug 2022 13:01:01: 35000000 INFO @ Tue, 02 Aug 2022 13:01:03: 42000000 INFO @ Tue, 02 Aug 2022 13:01:03: 40000000 INFO @ Tue, 02 Aug 2022 13:01:08: 36000000 INFO @ Tue, 02 Aug 2022 13:01:10: 43000000 INFO @ Tue, 02 Aug 2022 13:01:11: 41000000 INFO @ Tue, 02 Aug 2022 13:01:15: 37000000 INFO @ Tue, 02 Aug 2022 13:01:17: 44000000 INFO @ Tue, 02 Aug 2022 13:01:18: 42000000 INFO @ Tue, 02 Aug 2022 13:01:23: 38000000 INFO @ Tue, 02 Aug 2022 13:01:25: 45000000 INFO @ Tue, 02 Aug 2022 13:01:25: 43000000 INFO @ Tue, 02 Aug 2022 13:01:30: 39000000 INFO @ Tue, 02 Aug 2022 13:01:32: 46000000 INFO @ Tue, 02 Aug 2022 13:01:33: 44000000 INFO @ Tue, 02 Aug 2022 13:01:37: 40000000 INFO @ Tue, 02 Aug 2022 13:01:39: 47000000 INFO @ Tue, 02 Aug 2022 13:01:40: 45000000 INFO @ Tue, 02 Aug 2022 13:01:45: 41000000 INFO @ Tue, 02 Aug 2022 13:01:47: 48000000 INFO @ Tue, 02 Aug 2022 13:01:48: 46000000 INFO @ Tue, 02 Aug 2022 13:01:52: 42000000 INFO @ Tue, 02 Aug 2022 13:01:55: 49000000 INFO @ Tue, 02 Aug 2022 13:01:56: 47000000 INFO @ Tue, 02 Aug 2022 13:02:00: 43000000 INFO @ Tue, 02 Aug 2022 13:02:02: 50000000 INFO @ Tue, 02 Aug 2022 13:02:03: 48000000 INFO @ Tue, 02 Aug 2022 13:02:08: 44000000 INFO @ Tue, 02 Aug 2022 13:02:09: 51000000 INFO @ Tue, 02 Aug 2022 13:02:11: 49000000 INFO @ Tue, 02 Aug 2022 13:02:15: 45000000 INFO @ Tue, 02 Aug 2022 13:02:17: 52000000 INFO @ Tue, 02 Aug 2022 13:02:18: 50000000 INFO @ Tue, 02 Aug 2022 13:02:23: 46000000 INFO @ Tue, 02 Aug 2022 13:02:24: 53000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 13:02:25: 51000000 INFO @ Tue, 02 Aug 2022 13:02:30: 47000000 INFO @ Tue, 02 Aug 2022 13:02:32: 54000000 INFO @ Tue, 02 Aug 2022 13:02:32: 52000000 INFO @ Tue, 02 Aug 2022 13:02:38: 48000000 INFO @ Tue, 02 Aug 2022 13:02:40: 55000000 INFO @ Tue, 02 Aug 2022 13:02:40: 53000000 INFO @ Tue, 02 Aug 2022 13:02:46: 49000000 INFO @ Tue, 02 Aug 2022 13:02:48: 54000000 INFO @ Tue, 02 Aug 2022 13:02:48: 56000000 INFO @ Tue, 02 Aug 2022 13:02:54: 50000000 INFO @ Tue, 02 Aug 2022 13:02:55: 55000000 INFO @ Tue, 02 Aug 2022 13:02:56: 57000000 INFO @ Tue, 02 Aug 2022 13:03:01: 51000000 INFO @ Tue, 02 Aug 2022 13:03:03: 56000000 INFO @ Tue, 02 Aug 2022 13:03:06: 58000000 INFO @ Tue, 02 Aug 2022 13:03:09: 52000000 INFO @ Tue, 02 Aug 2022 13:03:11: 57000000 INFO @ Tue, 02 Aug 2022 13:03:14: 59000000 INFO @ Tue, 02 Aug 2022 13:03:17: 53000000 INFO @ Tue, 02 Aug 2022 13:03:19: 58000000 INFO @ Tue, 02 Aug 2022 13:03:24: 60000000 INFO @ Tue, 02 Aug 2022 13:03:25: 54000000 INFO @ Tue, 02 Aug 2022 13:03:29: 59000000 INFO @ Tue, 02 Aug 2022 13:03:33: 55000000 INFO @ Tue, 02 Aug 2022 13:03:34: 61000000 INFO @ Tue, 02 Aug 2022 13:03:37: 60000000 INFO @ Tue, 02 Aug 2022 13:03:41: 56000000 INFO @ Tue, 02 Aug 2022 13:03:42: 62000000 INFO @ Tue, 02 Aug 2022 13:03:46: 61000000 INFO @ Tue, 02 Aug 2022 13:03:49: 57000000 INFO @ Tue, 02 Aug 2022 13:03:50: 63000000 INFO @ Tue, 02 Aug 2022 13:03:54: 62000000 INFO @ Tue, 02 Aug 2022 13:03:56: 58000000 INFO @ Tue, 02 Aug 2022 13:03:58: 64000000 INFO @ Tue, 02 Aug 2022 13:04:01: 63000000 INFO @ Tue, 02 Aug 2022 13:04:05: 59000000 INFO @ Tue, 02 Aug 2022 13:04:07: 65000000 INFO @ Tue, 02 Aug 2022 13:04:09: 64000000 INFO @ Tue, 02 Aug 2022 13:04:12: 60000000 INFO @ Tue, 02 Aug 2022 13:04:14: 66000000 INFO @ Tue, 02 Aug 2022 13:04:16: 65000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 13:04:20: 61000000 INFO @ Tue, 02 Aug 2022 13:04:22: 67000000 INFO @ Tue, 02 Aug 2022 13:04:24: 66000000 INFO @ Tue, 02 Aug 2022 13:04:29: 62000000 INFO @ Tue, 02 Aug 2022 13:04:30: 68000000 INFO @ Tue, 02 Aug 2022 13:04:31: 67000000 INFO @ Tue, 02 Aug 2022 13:04:37: 63000000 INFO @ Tue, 02 Aug 2022 13:04:38: 69000000 INFO @ Tue, 02 Aug 2022 13:04:39: 68000000 INFO @ Tue, 02 Aug 2022 13:04:45: 64000000 INFO @ Tue, 02 Aug 2022 13:04:47: 70000000 INFO @ Tue, 02 Aug 2022 13:04:47: 69000000 INFO @ Tue, 02 Aug 2022 13:04:54: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:04:54: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:04:54: #1 total tags in treatment: 26695846 INFO @ Tue, 02 Aug 2022 13:04:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:04:54: #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 13:04:54: 65000000 INFO @ Tue, 02 Aug 2022 13:04:54: #1 tags after filtering in treatment: 18200962 INFO @ Tue, 02 Aug 2022 13:04:54: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 13:04:54: #1 finished! INFO @ Tue, 02 Aug 2022 13:04:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:04:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:04:55: 70000000 INFO @ Tue, 02 Aug 2022 13:04:55: #2 number of paired peaks: 225 WARNING @ Tue, 02 Aug 2022 13:04:55: Fewer paired peaks (225) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 225 pairs to build model! INFO @ Tue, 02 Aug 2022 13:04:55: start model_add_line... INFO @ Tue, 02 Aug 2022 13:04:56: start X-correlation... INFO @ Tue, 02 Aug 2022 13:04:56: end of X-cor INFO @ Tue, 02 Aug 2022 13:04:56: #2 finished! INFO @ Tue, 02 Aug 2022 13:04:56: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 13:04:56: #2 alternative fragment length(s) may be 4,89,112 bps INFO @ Tue, 02 Aug 2022 13:04:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05_model.r WARNING @ Tue, 02 Aug 2022 13:04:56: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:04:56: #2 You may need to consider one of the other alternative d(s): 4,89,112 WARNING @ Tue, 02 Aug 2022 13:04:56: #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 13:04:56: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:04:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:05:02: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:05:02: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:05:02: #1 total tags in treatment: 26695846 INFO @ Tue, 02 Aug 2022 13:05:02: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:05:02: #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 13:05:02: #1 tags after filtering in treatment: 18200962 INFO @ Tue, 02 Aug 2022 13:05:02: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 13:05:02: #1 finished! INFO @ Tue, 02 Aug 2022 13:05:02: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:05:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:05:04: #2 number of paired peaks: 225 WARNING @ Tue, 02 Aug 2022 13:05:04: Fewer paired peaks (225) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 225 pairs to build model! INFO @ Tue, 02 Aug 2022 13:05:04: start model_add_line... INFO @ Tue, 02 Aug 2022 13:05:04: start X-correlation... INFO @ Tue, 02 Aug 2022 13:05:04: end of X-cor INFO @ Tue, 02 Aug 2022 13:05:04: #2 finished! INFO @ Tue, 02 Aug 2022 13:05:04: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 13:05:04: #2 alternative fragment length(s) may be 4,89,112 bps INFO @ Tue, 02 Aug 2022 13:05:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10_model.r WARNING @ Tue, 02 Aug 2022 13:05:04: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:05:04: #2 You may need to consider one of the other alternative d(s): 4,89,112 WARNING @ Tue, 02 Aug 2022 13:05:04: #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 13:05:04: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:05:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:05:04: 66000000 INFO @ Tue, 02 Aug 2022 13:05:12: 67000000 INFO @ Tue, 02 Aug 2022 13:05:19: 68000000 INFO @ Tue, 02 Aug 2022 13:05:25: 69000000 INFO @ Tue, 02 Aug 2022 13:05:30: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:05:31: 70000000 INFO @ Tue, 02 Aug 2022 13:05:36: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 13:05:36: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 13:05:36: #1 total tags in treatment: 26695846 INFO @ Tue, 02 Aug 2022 13:05:36: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 13:05:36: #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 13:05:37: #1 tags after filtering in treatment: 18200962 INFO @ Tue, 02 Aug 2022 13:05:37: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 13:05:37: #1 finished! INFO @ Tue, 02 Aug 2022 13:05:37: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 13:05:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 13:05:38: #2 number of paired peaks: 225 WARNING @ Tue, 02 Aug 2022 13:05:38: Fewer paired peaks (225) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 225 pairs to build model! INFO @ Tue, 02 Aug 2022 13:05:38: start model_add_line... INFO @ Tue, 02 Aug 2022 13:05:38: start X-correlation... INFO @ Tue, 02 Aug 2022 13:05:38: end of X-cor INFO @ Tue, 02 Aug 2022 13:05:38: #2 finished! INFO @ Tue, 02 Aug 2022 13:05:38: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 13:05:38: #2 alternative fragment length(s) may be 4,89,112 bps INFO @ Tue, 02 Aug 2022 13:05:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20_model.r WARNING @ Tue, 02 Aug 2022 13:05:38: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 13:05:38: #2 You may need to consider one of the other alternative d(s): 4,89,112 WARNING @ Tue, 02 Aug 2022 13:05:38: #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 13:05:38: #3 Call peaks... INFO @ Tue, 02 Aug 2022 13:05:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 13:05:40: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:05:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05_peaks.xls INFO @ Tue, 02 Aug 2022 13:05:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:05:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.05_summits.bed INFO @ Tue, 02 Aug 2022 13:05:49: Done! pass1 - making usageList (15 chroms): 3 millis pass2 - checking and writing primary data (14182 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:05:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10_peaks.xls INFO @ Tue, 02 Aug 2022 13:05:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:05:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.10_summits.bed INFO @ Tue, 02 Aug 2022 13:05:59: Done! pass1 - making usageList (14 chroms): 2 millis pass2 - checking and writing primary data (7509 records, 4 fields): 116 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 13:06:12: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 13:06:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20_peaks.xls INFO @ Tue, 02 Aug 2022 13:06:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 13:06:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178867/SRX12178867.20_summits.bed INFO @ Tue, 02 Aug 2022 13:06:29: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (1704 records, 4 fields): 77 millis CompletedMACS2peakCalling