Job ID = 6368884 SRX = SRX6619587 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-16T00:39:05 prefetch.2.10.7: 1) Downloading 'SRR9866022'... 2020-06-16T00:39:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:56:23 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:56:23 prefetch.2.10.7: 1) 'SRR9866022' was downloaded successfully 2020-06-16T00:56:23 prefetch.2.10.7: 'SRR9866022' has 0 unresolved dependencies Read 50927183 spots for SRR9866022/SRR9866022.sra Written 50927183 spots for SRR9866022/SRR9866022.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 02:15:03 50927183 reads; of these: 50927183 (100.00%) were paired; of these: 16656074 (32.71%) aligned concordantly 0 times 28741023 (56.44%) aligned concordantly exactly 1 time 5530086 (10.86%) aligned concordantly >1 times ---- 16656074 pairs aligned concordantly 0 times; of these: 10699887 (64.24%) aligned discordantly 1 time ---- 5956187 pairs aligned 0 times concordantly or discordantly; of these: 11912374 mates make up the pairs; of these: 6944957 (58.30%) aligned 0 times 1909302 (16.03%) aligned exactly 1 time 3058115 (25.67%) aligned >1 times 93.18% overall alignment rate Time searching: 02:15:03 Overall time: 02:15:03 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 72 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 7379012 / 44660954 = 0.1652 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 13:01:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 13:01:32: #1 read tag files... INFO @ Tue, 16 Jun 2020 13:01:32: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 13:01:39: 1000000 INFO @ Tue, 16 Jun 2020 13:01:47: 2000000 INFO @ Tue, 16 Jun 2020 13:01:55: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 13:02:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 13:02:02: #1 read tag files... INFO @ Tue, 16 Jun 2020 13:02:02: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 13:02:02: 4000000 INFO @ Tue, 16 Jun 2020 13:02:10: 1000000 INFO @ Tue, 16 Jun 2020 13:02:11: 5000000 INFO @ Tue, 16 Jun 2020 13:02:19: 2000000 INFO @ Tue, 16 Jun 2020 13:02:20: 6000000 INFO @ Tue, 16 Jun 2020 13:02:28: 3000000 INFO @ Tue, 16 Jun 2020 13:02:29: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 13:02:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 13:02:32: #1 read tag files... INFO @ Tue, 16 Jun 2020 13:02:32: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 13:02:37: 4000000 INFO @ Tue, 16 Jun 2020 13:02:37: 8000000 INFO @ Tue, 16 Jun 2020 13:02:40: 1000000 INFO @ Tue, 16 Jun 2020 13:02:46: 5000000 INFO @ Tue, 16 Jun 2020 13:02:47: 9000000 INFO @ Tue, 16 Jun 2020 13:02:48: 2000000 INFO @ Tue, 16 Jun 2020 13:02:55: 6000000 INFO @ Tue, 16 Jun 2020 13:02:56: 10000000 INFO @ Tue, 16 Jun 2020 13:02:56: 3000000 INFO @ Tue, 16 Jun 2020 13:03:04: 4000000 INFO @ Tue, 16 Jun 2020 13:03:04: 7000000 INFO @ Tue, 16 Jun 2020 13:03:05: 11000000 INFO @ Tue, 16 Jun 2020 13:03:12: 5000000 INFO @ Tue, 16 Jun 2020 13:03:13: 8000000 INFO @ Tue, 16 Jun 2020 13:03:14: 12000000 INFO @ Tue, 16 Jun 2020 13:03:20: 6000000 INFO @ Tue, 16 Jun 2020 13:03:22: 9000000 INFO @ Tue, 16 Jun 2020 13:03:23: 13000000 INFO @ Tue, 16 Jun 2020 13:03:28: 7000000 INFO @ Tue, 16 Jun 2020 13:03:31: 10000000 INFO @ Tue, 16 Jun 2020 13:03:32: 14000000 INFO @ Tue, 16 Jun 2020 13:03:36: 8000000 INFO @ Tue, 16 Jun 2020 13:03:40: 11000000 INFO @ Tue, 16 Jun 2020 13:03:41: 15000000 INFO @ Tue, 16 Jun 2020 13:03:44: 9000000 INFO @ Tue, 16 Jun 2020 13:03:50: 12000000 INFO @ Tue, 16 Jun 2020 13:03:50: 16000000 INFO @ Tue, 16 Jun 2020 13:03:52: 10000000 INFO @ Tue, 16 Jun 2020 13:03:59: 13000000 INFO @ Tue, 16 Jun 2020 13:03:59: 17000000 INFO @ Tue, 16 Jun 2020 13:04:00: 11000000 INFO @ Tue, 16 Jun 2020 13:04:07: 14000000 INFO @ Tue, 16 Jun 2020 13:04:08: 12000000 INFO @ Tue, 16 Jun 2020 13:04:08: 18000000 INFO @ Tue, 16 Jun 2020 13:04:15: 13000000 INFO @ Tue, 16 Jun 2020 13:04:16: 15000000 INFO @ Tue, 16 Jun 2020 13:04:17: 19000000 INFO @ Tue, 16 Jun 2020 13:04:23: 14000000 INFO @ Tue, 16 Jun 2020 13:04:25: 16000000 INFO @ Tue, 16 Jun 2020 13:04:26: 20000000 INFO @ Tue, 16 Jun 2020 13:04:31: 15000000 INFO @ Tue, 16 Jun 2020 13:04:34: 17000000 INFO @ Tue, 16 Jun 2020 13:04:35: 21000000 INFO @ Tue, 16 Jun 2020 13:04:39: 16000000 INFO @ Tue, 16 Jun 2020 13:04:43: 18000000 INFO @ Tue, 16 Jun 2020 13:04:44: 22000000 INFO @ Tue, 16 Jun 2020 13:04:47: 17000000 INFO @ Tue, 16 Jun 2020 13:04:52: 19000000 INFO @ Tue, 16 Jun 2020 13:04:53: 23000000 INFO @ Tue, 16 Jun 2020 13:04:54: 18000000 INFO @ Tue, 16 Jun 2020 13:05:01: 20000000 INFO @ Tue, 16 Jun 2020 13:05:02: 19000000 INFO @ Tue, 16 Jun 2020 13:05:03: 24000000 INFO @ Tue, 16 Jun 2020 13:05:10: 20000000 INFO @ Tue, 16 Jun 2020 13:05:11: 21000000 INFO @ Tue, 16 Jun 2020 13:05:12: 25000000 INFO @ Tue, 16 Jun 2020 13:05:18: 21000000 INFO @ Tue, 16 Jun 2020 13:05:20: 22000000 INFO @ Tue, 16 Jun 2020 13:05:21: 26000000 INFO @ Tue, 16 Jun 2020 13:05:26: 22000000 INFO @ Tue, 16 Jun 2020 13:05:29: 23000000 INFO @ Tue, 16 Jun 2020 13:05:30: 27000000 INFO @ Tue, 16 Jun 2020 13:05:34: 23000000 INFO @ Tue, 16 Jun 2020 13:05:38: 24000000 INFO @ Tue, 16 Jun 2020 13:05:39: 28000000 INFO @ Tue, 16 Jun 2020 13:05:42: 24000000 INFO @ Tue, 16 Jun 2020 13:05:47: 25000000 INFO @ Tue, 16 Jun 2020 13:05:48: 29000000 INFO @ Tue, 16 Jun 2020 13:05:50: 25000000 INFO @ Tue, 16 Jun 2020 13:05:56: 26000000 INFO @ Tue, 16 Jun 2020 13:05:57: 30000000 INFO @ Tue, 16 Jun 2020 13:05:59: 26000000 INFO @ Tue, 16 Jun 2020 13:06:05: 27000000 INFO @ Tue, 16 Jun 2020 13:06:06: 31000000 INFO @ Tue, 16 Jun 2020 13:06:07: 27000000 INFO @ Tue, 16 Jun 2020 13:06:14: 28000000 INFO @ Tue, 16 Jun 2020 13:06:14: 28000000 INFO @ Tue, 16 Jun 2020 13:06:15: 32000000 INFO @ Tue, 16 Jun 2020 13:06:23: 29000000 INFO @ Tue, 16 Jun 2020 13:06:23: 29000000 INFO @ Tue, 16 Jun 2020 13:06:24: 33000000 INFO @ Tue, 16 Jun 2020 13:06:31: 30000000 INFO @ Tue, 16 Jun 2020 13:06:32: 30000000 INFO @ Tue, 16 Jun 2020 13:06:33: 34000000 INFO @ Tue, 16 Jun 2020 13:06:38: 31000000 INFO @ Tue, 16 Jun 2020 13:06:41: 31000000 INFO @ Tue, 16 Jun 2020 13:06:42: 35000000 INFO @ Tue, 16 Jun 2020 13:06:46: 32000000 INFO @ Tue, 16 Jun 2020 13:06:50: 32000000 INFO @ Tue, 16 Jun 2020 13:06:51: 36000000 INFO @ Tue, 16 Jun 2020 13:06:54: 33000000 INFO @ Tue, 16 Jun 2020 13:06:59: 33000000 INFO @ Tue, 16 Jun 2020 13:07:00: 37000000 INFO @ Tue, 16 Jun 2020 13:07:02: 34000000 INFO @ Tue, 16 Jun 2020 13:07:08: 34000000 INFO @ Tue, 16 Jun 2020 13:07:08: 38000000 INFO @ Tue, 16 Jun 2020 13:07:10: 35000000 INFO @ Tue, 16 Jun 2020 13:07:17: 35000000 INFO @ Tue, 16 Jun 2020 13:07:17: 39000000 INFO @ Tue, 16 Jun 2020 13:07:18: 36000000 INFO @ Tue, 16 Jun 2020 13:07:26: 37000000 INFO @ Tue, 16 Jun 2020 13:07:26: 36000000 INFO @ Tue, 16 Jun 2020 13:07:26: 40000000 INFO @ Tue, 16 Jun 2020 13:07:34: 38000000 INFO @ Tue, 16 Jun 2020 13:07:35: 37000000 INFO @ Tue, 16 Jun 2020 13:07:35: 41000000 INFO @ Tue, 16 Jun 2020 13:07:41: 39000000 INFO @ Tue, 16 Jun 2020 13:07:43: 38000000 INFO @ Tue, 16 Jun 2020 13:07:44: 42000000 INFO @ Tue, 16 Jun 2020 13:07:49: 40000000 INFO @ Tue, 16 Jun 2020 13:07:52: 39000000 INFO @ Tue, 16 Jun 2020 13:07:54: 43000000 INFO @ Tue, 16 Jun 2020 13:07:57: 41000000 INFO @ Tue, 16 Jun 2020 13:08:01: 40000000 INFO @ Tue, 16 Jun 2020 13:08:03: 44000000 INFO @ Tue, 16 Jun 2020 13:08:05: 42000000 INFO @ Tue, 16 Jun 2020 13:08:10: 41000000 INFO @ Tue, 16 Jun 2020 13:08:12: 45000000 INFO @ Tue, 16 Jun 2020 13:08:13: 43000000 INFO @ Tue, 16 Jun 2020 13:08:19: 42000000 INFO @ Tue, 16 Jun 2020 13:08:21: 46000000 INFO @ Tue, 16 Jun 2020 13:08:22: 44000000 INFO @ Tue, 16 Jun 2020 13:08:28: 43000000 INFO @ Tue, 16 Jun 2020 13:08:30: 45000000 INFO @ Tue, 16 Jun 2020 13:08:30: 47000000 INFO @ Tue, 16 Jun 2020 13:08:37: 44000000 INFO @ Tue, 16 Jun 2020 13:08:38: 46000000 INFO @ Tue, 16 Jun 2020 13:08:39: 48000000 INFO @ Tue, 16 Jun 2020 13:08:46: 47000000 INFO @ Tue, 16 Jun 2020 13:08:46: 45000000 INFO @ Tue, 16 Jun 2020 13:08:49: 49000000 INFO @ Tue, 16 Jun 2020 13:08:54: 48000000 INFO @ Tue, 16 Jun 2020 13:08:56: 46000000 INFO @ Tue, 16 Jun 2020 13:08:58: 50000000 INFO @ Tue, 16 Jun 2020 13:09:02: 49000000 INFO @ Tue, 16 Jun 2020 13:09:05: 47000000 INFO @ Tue, 16 Jun 2020 13:09:07: 51000000 INFO @ Tue, 16 Jun 2020 13:09:10: 50000000 INFO @ Tue, 16 Jun 2020 13:09:14: 48000000 INFO @ Tue, 16 Jun 2020 13:09:16: 52000000 INFO @ Tue, 16 Jun 2020 13:09:18: 51000000 INFO @ Tue, 16 Jun 2020 13:09:23: 49000000 INFO @ Tue, 16 Jun 2020 13:09:25: 53000000 INFO @ Tue, 16 Jun 2020 13:09:26: 52000000 INFO @ Tue, 16 Jun 2020 13:09:33: 50000000 INFO @ Tue, 16 Jun 2020 13:09:34: 53000000 INFO @ Tue, 16 Jun 2020 13:09:35: 54000000 INFO @ Tue, 16 Jun 2020 13:09:42: 51000000 INFO @ Tue, 16 Jun 2020 13:09:42: 54000000 INFO @ Tue, 16 Jun 2020 13:09:44: 55000000 INFO @ Tue, 16 Jun 2020 13:09:50: 55000000 INFO @ Tue, 16 Jun 2020 13:09:51: 52000000 INFO @ Tue, 16 Jun 2020 13:09:53: 56000000 INFO @ Tue, 16 Jun 2020 13:09:58: 56000000 INFO @ Tue, 16 Jun 2020 13:10:00: 53000000 INFO @ Tue, 16 Jun 2020 13:10:02: 57000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 13:10:06: 57000000 INFO @ Tue, 16 Jun 2020 13:10:09: 54000000 INFO @ Tue, 16 Jun 2020 13:10:12: 58000000 INFO @ Tue, 16 Jun 2020 13:10:14: 58000000 INFO @ Tue, 16 Jun 2020 13:10:18: 55000000 INFO @ Tue, 16 Jun 2020 13:10:21: 59000000 INFO @ Tue, 16 Jun 2020 13:10:21: 59000000 INFO @ Tue, 16 Jun 2020 13:10:27: 56000000 INFO @ Tue, 16 Jun 2020 13:10:29: 60000000 INFO @ Tue, 16 Jun 2020 13:10:30: 60000000 INFO @ Tue, 16 Jun 2020 13:10:35: 57000000 INFO @ Tue, 16 Jun 2020 13:10:37: 61000000 INFO @ Tue, 16 Jun 2020 13:10:39: 61000000 INFO @ Tue, 16 Jun 2020 13:10:44: 58000000 INFO @ Tue, 16 Jun 2020 13:10:44: 62000000 INFO @ Tue, 16 Jun 2020 13:10:47: 62000000 INFO @ Tue, 16 Jun 2020 13:10:52: 63000000 INFO @ Tue, 16 Jun 2020 13:10:53: 59000000 INFO @ Tue, 16 Jun 2020 13:10:56: 63000000 INFO @ Tue, 16 Jun 2020 13:10:59: 64000000 INFO @ Tue, 16 Jun 2020 13:11:02: 60000000 INFO @ Tue, 16 Jun 2020 13:11:05: 64000000 INFO @ Tue, 16 Jun 2020 13:11:07: 65000000 INFO @ Tue, 16 Jun 2020 13:11:11: 61000000 INFO @ Tue, 16 Jun 2020 13:11:14: 65000000 INFO @ Tue, 16 Jun 2020 13:11:14: 66000000 INFO @ Tue, 16 Jun 2020 13:11:19: 62000000 INFO @ Tue, 16 Jun 2020 13:11:22: 67000000 INFO @ Tue, 16 Jun 2020 13:11:23: 66000000 INFO @ Tue, 16 Jun 2020 13:11:28: 63000000 INFO @ Tue, 16 Jun 2020 13:11:30: 68000000 INFO @ Tue, 16 Jun 2020 13:11:32: 67000000 INFO @ Tue, 16 Jun 2020 13:11:37: 64000000 INFO @ Tue, 16 Jun 2020 13:11:37: 69000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 13:11:41: 68000000 INFO @ Tue, 16 Jun 2020 13:11:45: 70000000 INFO @ Tue, 16 Jun 2020 13:11:45: 65000000 INFO @ Tue, 16 Jun 2020 13:11:50: 69000000 INFO @ Tue, 16 Jun 2020 13:11:53: 71000000 INFO @ Tue, 16 Jun 2020 13:11:55: 66000000 INFO @ Tue, 16 Jun 2020 13:11:58: 70000000 INFO @ Tue, 16 Jun 2020 13:12:01: 72000000 INFO @ Tue, 16 Jun 2020 13:12:03: 67000000 INFO @ Tue, 16 Jun 2020 13:12:08: 71000000 INFO @ Tue, 16 Jun 2020 13:12:08: 73000000 INFO @ Tue, 16 Jun 2020 13:12:12: 68000000 INFO @ Tue, 16 Jun 2020 13:12:16: 74000000 INFO @ Tue, 16 Jun 2020 13:12:17: 72000000 INFO @ Tue, 16 Jun 2020 13:12:21: 69000000 INFO @ Tue, 16 Jun 2020 13:12:24: 75000000 INFO @ Tue, 16 Jun 2020 13:12:26: 73000000 INFO @ Tue, 16 Jun 2020 13:12:30: 70000000 INFO @ Tue, 16 Jun 2020 13:12:32: 76000000 INFO @ Tue, 16 Jun 2020 13:12:35: 74000000 INFO @ Tue, 16 Jun 2020 13:12:39: 71000000 INFO @ Tue, 16 Jun 2020 13:12:39: 77000000 INFO @ Tue, 16 Jun 2020 13:12:44: 75000000 INFO @ Tue, 16 Jun 2020 13:12:47: 78000000 INFO @ Tue, 16 Jun 2020 13:12:48: 72000000 INFO @ Tue, 16 Jun 2020 13:12:53: 76000000 INFO @ Tue, 16 Jun 2020 13:12:54: 79000000 INFO @ Tue, 16 Jun 2020 13:12:57: 73000000 INFO @ Tue, 16 Jun 2020 13:13:02: 77000000 INFO @ Tue, 16 Jun 2020 13:13:02: 80000000 INFO @ Tue, 16 Jun 2020 13:13:04: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 13:13:04: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 13:13:04: #1 total tags in treatment: 28570399 INFO @ Tue, 16 Jun 2020 13:13:04: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 13:13:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 13:13:04: #1 tags after filtering in treatment: 22007805 INFO @ Tue, 16 Jun 2020 13:13:04: #1 Redundant rate of treatment: 0.23 INFO @ Tue, 16 Jun 2020 13:13:04: #1 finished! INFO @ Tue, 16 Jun 2020 13:13:04: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 13:13:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 13:13:06: 74000000 INFO @ Tue, 16 Jun 2020 13:13:06: #2 number of paired peaks: 236 WARNING @ Tue, 16 Jun 2020 13:13:06: Fewer paired peaks (236) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 236 pairs to build model! INFO @ Tue, 16 Jun 2020 13:13:06: start model_add_line... INFO @ Tue, 16 Jun 2020 13:13:06: start X-correlation... INFO @ Tue, 16 Jun 2020 13:13:06: end of X-cor INFO @ Tue, 16 Jun 2020 13:13:06: #2 finished! INFO @ Tue, 16 Jun 2020 13:13:06: #2 predicted fragment length is 215 bps INFO @ Tue, 16 Jun 2020 13:13:06: #2 alternative fragment length(s) may be 3,201,215 bps INFO @ Tue, 16 Jun 2020 13:13:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20_model.r WARNING @ Tue, 16 Jun 2020 13:13:06: #2 Since the d (215) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 13:13:06: #2 You may need to consider one of the other alternative d(s): 3,201,215 WARNING @ Tue, 16 Jun 2020 13:13:06: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 13:13:06: #3 Call peaks... INFO @ Tue, 16 Jun 2020 13:13:06: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 13:13:11: 78000000 INFO @ Tue, 16 Jun 2020 13:13:14: 75000000 INFO @ Tue, 16 Jun 2020 13:13:20: 79000000 INFO @ Tue, 16 Jun 2020 13:13:23: 76000000 INFO @ Tue, 16 Jun 2020 13:13:28: 80000000 INFO @ Tue, 16 Jun 2020 13:13:30: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 13:13:30: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 13:13:30: #1 total tags in treatment: 28570399 INFO @ Tue, 16 Jun 2020 13:13:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 13:13:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 13:13:31: #1 tags after filtering in treatment: 22007805 INFO @ Tue, 16 Jun 2020 13:13:31: #1 Redundant rate of treatment: 0.23 INFO @ Tue, 16 Jun 2020 13:13:31: #1 finished! INFO @ Tue, 16 Jun 2020 13:13:31: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 13:13:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 13:13:31: 77000000 INFO @ Tue, 16 Jun 2020 13:13:32: #2 number of paired peaks: 236 WARNING @ Tue, 16 Jun 2020 13:13:32: Fewer paired peaks (236) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 236 pairs to build model! INFO @ Tue, 16 Jun 2020 13:13:32: start model_add_line... INFO @ Tue, 16 Jun 2020 13:13:32: start X-correlation... INFO @ Tue, 16 Jun 2020 13:13:32: end of X-cor INFO @ Tue, 16 Jun 2020 13:13:32: #2 finished! INFO @ Tue, 16 Jun 2020 13:13:32: #2 predicted fragment length is 215 bps INFO @ Tue, 16 Jun 2020 13:13:32: #2 alternative fragment length(s) may be 3,201,215 bps INFO @ Tue, 16 Jun 2020 13:13:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05_model.r WARNING @ Tue, 16 Jun 2020 13:13:32: #2 Since the d (215) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 13:13:32: #2 You may need to consider one of the other alternative d(s): 3,201,215 WARNING @ Tue, 16 Jun 2020 13:13:32: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 13:13:32: #3 Call peaks... INFO @ Tue, 16 Jun 2020 13:13:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 13:13:38: 78000000 INFO @ Tue, 16 Jun 2020 13:13:46: 79000000 INFO @ Tue, 16 Jun 2020 13:13:50: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 13:13:54: 80000000 INFO @ Tue, 16 Jun 2020 13:13:55: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 13:13:55: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 13:13:55: #1 total tags in treatment: 28570399 INFO @ Tue, 16 Jun 2020 13:13:55: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 13:13:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 13:13:56: #1 tags after filtering in treatment: 22007805 INFO @ Tue, 16 Jun 2020 13:13:56: #1 Redundant rate of treatment: 0.23 INFO @ Tue, 16 Jun 2020 13:13:56: #1 finished! INFO @ Tue, 16 Jun 2020 13:13:56: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 13:13:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 13:13:57: #2 number of paired peaks: 236 WARNING @ Tue, 16 Jun 2020 13:13:57: Fewer paired peaks (236) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 236 pairs to build model! INFO @ Tue, 16 Jun 2020 13:13:57: start model_add_line... INFO @ Tue, 16 Jun 2020 13:13:57: start X-correlation... INFO @ Tue, 16 Jun 2020 13:13:58: end of X-cor INFO @ Tue, 16 Jun 2020 13:13:58: #2 finished! INFO @ Tue, 16 Jun 2020 13:13:58: #2 predicted fragment length is 215 bps INFO @ Tue, 16 Jun 2020 13:13:58: #2 alternative fragment length(s) may be 3,201,215 bps INFO @ Tue, 16 Jun 2020 13:13:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10_model.r WARNING @ Tue, 16 Jun 2020 13:13:58: #2 Since the d (215) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 13:13:58: #2 You may need to consider one of the other alternative d(s): 3,201,215 WARNING @ Tue, 16 Jun 2020 13:13:58: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 13:13:58: #3 Call peaks... INFO @ Tue, 16 Jun 2020 13:13:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 13:14:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20_peaks.xls INFO @ Tue, 16 Jun 2020 13:14:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 13:14:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.20_summits.bed INFO @ Tue, 16 Jun 2020 13:14:09: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6551 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 13:14:19: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 13:14:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05_peaks.xls INFO @ Tue, 16 Jun 2020 13:14:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 13:14:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.05_summits.bed INFO @ Tue, 16 Jun 2020 13:14:42: Done! pass1 - making usageList (7 chroms): 5 millis pass2 - checking and writing primary data (33976 records, 4 fields): 85 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 13:14:45: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 13:15:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10_peaks.xls INFO @ Tue, 16 Jun 2020 13:15:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 13:15:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619587/SRX6619587.10_summits.bed INFO @ Tue, 16 Jun 2020 13:15:06: Done! pass1 - making usageList (7 chroms): 4 millis pass2 - checking and writing primary data (20136 records, 4 fields): 23 millis CompletedMACS2peakCalling