Job ID = 6368462 SRX = SRX4996819 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-16T00:19:51 prefetch.2.10.7: 1) Downloading 'SRR8176704'... 2020-06-16T00:19:51 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:26:55 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:26:55 prefetch.2.10.7: 1) 'SRR8176704' was downloaded successfully 2020-06-16T00:26:55 prefetch.2.10.7: 'SRR8176704' has 0 unresolved dependencies Read 34633057 spots for SRR8176704/SRR8176704.sra Written 34633057 spots for SRR8176704/SRR8176704.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: 00:30:30 34633057 reads; of these: 34633057 (100.00%) were paired; of these: 1537400 (4.44%) aligned concordantly 0 times 28364914 (81.90%) aligned concordantly exactly 1 time 4730743 (13.66%) aligned concordantly >1 times ---- 1537400 pairs aligned concordantly 0 times; of these: 789903 (51.38%) aligned discordantly 1 time ---- 747497 pairs aligned 0 times concordantly or discordantly; of these: 1494994 mates make up the pairs; of these: 877517 (58.70%) aligned 0 times 380556 (25.46%) aligned exactly 1 time 236921 (15.85%) aligned >1 times 98.73% overall alignment rate Time searching: 00:30:30 Overall time: 00:30:30 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 28 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] 513722 / 33864088 = 0.0152 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 10:17:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.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 10:17:37: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:17:37: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:17:43: 1000000 INFO @ Tue, 16 Jun 2020 10:17:48: 2000000 INFO @ Tue, 16 Jun 2020 10:17:53: 3000000 INFO @ Tue, 16 Jun 2020 10:17:58: 4000000 INFO @ Tue, 16 Jun 2020 10:18:03: 5000000 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 10:18:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.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 10:18:07: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:18:07: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:18:09: 6000000 INFO @ Tue, 16 Jun 2020 10:18:14: 1000000 INFO @ Tue, 16 Jun 2020 10:18:15: 7000000 INFO @ Tue, 16 Jun 2020 10:18:21: 2000000 INFO @ Tue, 16 Jun 2020 10:18:21: 8000000 INFO @ Tue, 16 Jun 2020 10:18:27: 9000000 INFO @ Tue, 16 Jun 2020 10:18:27: 3000000 INFO @ Tue, 16 Jun 2020 10:18:33: 10000000 INFO @ Tue, 16 Jun 2020 10:18:34: 4000000 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 10:18:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.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 10:18:38: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:18:38: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:18:39: 11000000 INFO @ Tue, 16 Jun 2020 10:18:40: 5000000 INFO @ Tue, 16 Jun 2020 10:18:44: 1000000 INFO @ Tue, 16 Jun 2020 10:18:45: 12000000 INFO @ Tue, 16 Jun 2020 10:18:47: 6000000 INFO @ Tue, 16 Jun 2020 10:18:51: 13000000 INFO @ Tue, 16 Jun 2020 10:18:51: 2000000 INFO @ Tue, 16 Jun 2020 10:18:54: 7000000 INFO @ Tue, 16 Jun 2020 10:18:57: 14000000 INFO @ Tue, 16 Jun 2020 10:18:58: 3000000 INFO @ Tue, 16 Jun 2020 10:19:00: 8000000 INFO @ Tue, 16 Jun 2020 10:19:03: 15000000 INFO @ Tue, 16 Jun 2020 10:19:04: 4000000 INFO @ Tue, 16 Jun 2020 10:19:07: 9000000 INFO @ Tue, 16 Jun 2020 10:19:09: 16000000 INFO @ Tue, 16 Jun 2020 10:19:11: 5000000 INFO @ Tue, 16 Jun 2020 10:19:14: 10000000 INFO @ Tue, 16 Jun 2020 10:19:15: 17000000 INFO @ Tue, 16 Jun 2020 10:19:17: 6000000 INFO @ Tue, 16 Jun 2020 10:19:20: 11000000 INFO @ Tue, 16 Jun 2020 10:19:22: 18000000 INFO @ Tue, 16 Jun 2020 10:19:24: 7000000 INFO @ Tue, 16 Jun 2020 10:19:27: 12000000 INFO @ Tue, 16 Jun 2020 10:19:28: 19000000 INFO @ Tue, 16 Jun 2020 10:19:30: 8000000 INFO @ Tue, 16 Jun 2020 10:19:34: 13000000 INFO @ Tue, 16 Jun 2020 10:19:34: 20000000 INFO @ Tue, 16 Jun 2020 10:19:37: 9000000 INFO @ Tue, 16 Jun 2020 10:19:41: 14000000 INFO @ Tue, 16 Jun 2020 10:19:41: 21000000 INFO @ Tue, 16 Jun 2020 10:19:43: 10000000 INFO @ Tue, 16 Jun 2020 10:19:47: 22000000 INFO @ Tue, 16 Jun 2020 10:19:48: 15000000 INFO @ Tue, 16 Jun 2020 10:19:50: 11000000 INFO @ Tue, 16 Jun 2020 10:19:53: 23000000 INFO @ Tue, 16 Jun 2020 10:19:55: 16000000 INFO @ Tue, 16 Jun 2020 10:19:57: 12000000 INFO @ Tue, 16 Jun 2020 10:19:59: 24000000 INFO @ Tue, 16 Jun 2020 10:20:03: 17000000 INFO @ Tue, 16 Jun 2020 10:20:03: 13000000 INFO @ Tue, 16 Jun 2020 10:20:06: 25000000 INFO @ Tue, 16 Jun 2020 10:20:10: 14000000 INFO @ Tue, 16 Jun 2020 10:20:10: 18000000 INFO @ Tue, 16 Jun 2020 10:20:12: 26000000 INFO @ Tue, 16 Jun 2020 10:20:16: 15000000 INFO @ Tue, 16 Jun 2020 10:20:17: 19000000 INFO @ Tue, 16 Jun 2020 10:20:18: 27000000 INFO @ Tue, 16 Jun 2020 10:20:23: 16000000 INFO @ Tue, 16 Jun 2020 10:20:24: 20000000 INFO @ Tue, 16 Jun 2020 10:20:24: 28000000 INFO @ Tue, 16 Jun 2020 10:20:30: 17000000 INFO @ Tue, 16 Jun 2020 10:20:31: 29000000 INFO @ Tue, 16 Jun 2020 10:20:31: 21000000 INFO @ Tue, 16 Jun 2020 10:20:36: 18000000 INFO @ Tue, 16 Jun 2020 10:20:37: 30000000 INFO @ Tue, 16 Jun 2020 10:20:38: 22000000 INFO @ Tue, 16 Jun 2020 10:20:43: 19000000 INFO @ Tue, 16 Jun 2020 10:20:44: 31000000 INFO @ Tue, 16 Jun 2020 10:20:46: 23000000 INFO @ Tue, 16 Jun 2020 10:20:50: 32000000 INFO @ Tue, 16 Jun 2020 10:20:50: 20000000 INFO @ Tue, 16 Jun 2020 10:20:53: 24000000 INFO @ Tue, 16 Jun 2020 10:20:57: 33000000 INFO @ Tue, 16 Jun 2020 10:20:57: 21000000 INFO @ Tue, 16 Jun 2020 10:21:00: 25000000 INFO @ Tue, 16 Jun 2020 10:21:03: 34000000 INFO @ Tue, 16 Jun 2020 10:21:04: 22000000 INFO @ Tue, 16 Jun 2020 10:21:08: 26000000 INFO @ Tue, 16 Jun 2020 10:21:09: 35000000 INFO @ Tue, 16 Jun 2020 10:21:10: 23000000 INFO @ Tue, 16 Jun 2020 10:21:15: 27000000 INFO @ Tue, 16 Jun 2020 10:21:15: 36000000 INFO @ Tue, 16 Jun 2020 10:21:17: 24000000 INFO @ Tue, 16 Jun 2020 10:21:21: 37000000 INFO @ Tue, 16 Jun 2020 10:21:22: 28000000 INFO @ Tue, 16 Jun 2020 10:21:24: 25000000 INFO @ Tue, 16 Jun 2020 10:21:28: 38000000 INFO @ Tue, 16 Jun 2020 10:21:28: 29000000 INFO @ Tue, 16 Jun 2020 10:21:30: 26000000 INFO @ Tue, 16 Jun 2020 10:21:34: 39000000 INFO @ Tue, 16 Jun 2020 10:21:35: 30000000 INFO @ Tue, 16 Jun 2020 10:21:37: 27000000 INFO @ Tue, 16 Jun 2020 10:21:40: 40000000 INFO @ Tue, 16 Jun 2020 10:21:42: 31000000 INFO @ Tue, 16 Jun 2020 10:21:44: 28000000 INFO @ Tue, 16 Jun 2020 10:21:46: 41000000 INFO @ Tue, 16 Jun 2020 10:21:49: 32000000 INFO @ Tue, 16 Jun 2020 10:21:50: 29000000 INFO @ Tue, 16 Jun 2020 10:21:53: 42000000 INFO @ Tue, 16 Jun 2020 10:21:55: 33000000 INFO @ Tue, 16 Jun 2020 10:21:57: 30000000 INFO @ Tue, 16 Jun 2020 10:21:59: 43000000 INFO @ Tue, 16 Jun 2020 10:22:02: 34000000 INFO @ Tue, 16 Jun 2020 10:22:04: 31000000 INFO @ Tue, 16 Jun 2020 10:22:05: 44000000 INFO @ Tue, 16 Jun 2020 10:22:09: 35000000 INFO @ Tue, 16 Jun 2020 10:22:11: 32000000 INFO @ Tue, 16 Jun 2020 10:22:11: 45000000 INFO @ Tue, 16 Jun 2020 10:22:16: 36000000 INFO @ Tue, 16 Jun 2020 10:22:17: 33000000 INFO @ Tue, 16 Jun 2020 10:22:17: 46000000 INFO @ Tue, 16 Jun 2020 10:22:23: 37000000 INFO @ Tue, 16 Jun 2020 10:22:24: 47000000 INFO @ Tue, 16 Jun 2020 10:22:24: 34000000 INFO @ Tue, 16 Jun 2020 10:22:30: 38000000 INFO @ Tue, 16 Jun 2020 10:22:30: 48000000 INFO @ Tue, 16 Jun 2020 10:22:31: 35000000 INFO @ Tue, 16 Jun 2020 10:22:36: 49000000 INFO @ Tue, 16 Jun 2020 10:22:37: 39000000 INFO @ Tue, 16 Jun 2020 10:22:37: 36000000 INFO @ Tue, 16 Jun 2020 10:22:42: 50000000 INFO @ Tue, 16 Jun 2020 10:22:44: 37000000 INFO @ Tue, 16 Jun 2020 10:22:44: 40000000 INFO @ Tue, 16 Jun 2020 10:22:48: 51000000 INFO @ Tue, 16 Jun 2020 10:22:50: 38000000 INFO @ Tue, 16 Jun 2020 10:22:51: 41000000 INFO @ Tue, 16 Jun 2020 10:22:54: 52000000 INFO @ Tue, 16 Jun 2020 10:22:57: 39000000 INFO @ Tue, 16 Jun 2020 10:22:58: 42000000 INFO @ Tue, 16 Jun 2020 10:23:01: 53000000 INFO @ Tue, 16 Jun 2020 10:23:04: 40000000 INFO @ Tue, 16 Jun 2020 10:23:06: 43000000 INFO @ Tue, 16 Jun 2020 10:23:07: 54000000 INFO @ Tue, 16 Jun 2020 10:23:10: 41000000 INFO @ Tue, 16 Jun 2020 10:23:13: 44000000 INFO @ Tue, 16 Jun 2020 10:23:13: 55000000 INFO @ Tue, 16 Jun 2020 10:23:17: 42000000 INFO @ Tue, 16 Jun 2020 10:23:20: 56000000 INFO @ Tue, 16 Jun 2020 10:23:20: 45000000 INFO @ Tue, 16 Jun 2020 10:23:24: 43000000 INFO @ Tue, 16 Jun 2020 10:23:26: 57000000 INFO @ Tue, 16 Jun 2020 10:23:27: 46000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:23:31: 44000000 INFO @ Tue, 16 Jun 2020 10:23:32: 58000000 INFO @ Tue, 16 Jun 2020 10:23:34: 47000000 INFO @ Tue, 16 Jun 2020 10:23:38: 45000000 INFO @ Tue, 16 Jun 2020 10:23:39: 59000000 INFO @ Tue, 16 Jun 2020 10:23:41: 48000000 INFO @ Tue, 16 Jun 2020 10:23:45: 46000000 INFO @ Tue, 16 Jun 2020 10:23:45: 60000000 INFO @ Tue, 16 Jun 2020 10:23:48: 49000000 INFO @ Tue, 16 Jun 2020 10:23:51: 61000000 INFO @ Tue, 16 Jun 2020 10:23:52: 47000000 INFO @ Tue, 16 Jun 2020 10:23:55: 50000000 INFO @ Tue, 16 Jun 2020 10:23:57: 62000000 INFO @ Tue, 16 Jun 2020 10:23:59: 48000000 INFO @ Tue, 16 Jun 2020 10:24:02: 51000000 INFO @ Tue, 16 Jun 2020 10:24:04: 63000000 INFO @ Tue, 16 Jun 2020 10:24:06: 49000000 INFO @ Tue, 16 Jun 2020 10:24:09: 52000000 INFO @ Tue, 16 Jun 2020 10:24:10: 64000000 INFO @ Tue, 16 Jun 2020 10:24:13: 50000000 INFO @ Tue, 16 Jun 2020 10:24:16: 53000000 INFO @ Tue, 16 Jun 2020 10:24:16: 65000000 INFO @ Tue, 16 Jun 2020 10:24:20: 51000000 INFO @ Tue, 16 Jun 2020 10:24:23: 66000000 INFO @ Tue, 16 Jun 2020 10:24:23: 54000000 INFO @ Tue, 16 Jun 2020 10:24:27: 52000000 INFO @ Tue, 16 Jun 2020 10:24:29: 67000000 INFO @ Tue, 16 Jun 2020 10:24:30: 55000000 INFO @ Tue, 16 Jun 2020 10:24:32: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 10:24:32: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 10:24:32: #1 total tags in treatment: 32586072 INFO @ Tue, 16 Jun 2020 10:24:32: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:24:32: #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 10:24:32: #1 tags after filtering in treatment: 28289050 INFO @ Tue, 16 Jun 2020 10:24:32: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 16 Jun 2020 10:24:32: #1 finished! INFO @ Tue, 16 Jun 2020 10:24:32: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:24:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:24:33: 53000000 INFO @ Tue, 16 Jun 2020 10:24:34: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:24:34: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:24:34: start model_add_line... INFO @ Tue, 16 Jun 2020 10:24:34: start X-correlation... INFO @ Tue, 16 Jun 2020 10:24:34: end of X-cor INFO @ Tue, 16 Jun 2020 10:24:34: #2 finished! INFO @ Tue, 16 Jun 2020 10:24:34: #2 predicted fragment length is 53 bps INFO @ Tue, 16 Jun 2020 10:24:34: #2 alternative fragment length(s) may be 2,53,124 bps INFO @ Tue, 16 Jun 2020 10:24:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05_model.r WARNING @ Tue, 16 Jun 2020 10:24:34: #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, 16 Jun 2020 10:24:34: #2 You may need to consider one of the other alternative d(s): 2,53,124 WARNING @ Tue, 16 Jun 2020 10:24:34: #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 10:24:34: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:24:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:24:38: 56000000 INFO @ Tue, 16 Jun 2020 10:24:40: 54000000 INFO @ Tue, 16 Jun 2020 10:24:45: 57000000 INFO @ Tue, 16 Jun 2020 10:24:47: 55000000 INFO @ Tue, 16 Jun 2020 10:24:52: 58000000 INFO @ Tue, 16 Jun 2020 10:24:53: 56000000 INFO @ Tue, 16 Jun 2020 10:24:59: 59000000 INFO @ Tue, 16 Jun 2020 10:25:00: 57000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 10:25:06: 60000000 INFO @ Tue, 16 Jun 2020 10:25:07: 58000000 INFO @ Tue, 16 Jun 2020 10:25:12: 61000000 INFO @ Tue, 16 Jun 2020 10:25:13: 59000000 INFO @ Tue, 16 Jun 2020 10:25:19: 62000000 INFO @ Tue, 16 Jun 2020 10:25:20: 60000000 INFO @ Tue, 16 Jun 2020 10:25:23: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:25:25: 63000000 INFO @ Tue, 16 Jun 2020 10:25:27: 61000000 INFO @ Tue, 16 Jun 2020 10:25:32: 64000000 INFO @ Tue, 16 Jun 2020 10:25:34: 62000000 INFO @ Tue, 16 Jun 2020 10:25:39: 65000000 INFO @ Tue, 16 Jun 2020 10:25:40: 63000000 INFO @ Tue, 16 Jun 2020 10:25:45: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05_peaks.xls INFO @ Tue, 16 Jun 2020 10:25:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:25:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.05_summits.bed INFO @ Tue, 16 Jun 2020 10:25:45: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (655 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:25:46: 66000000 INFO @ Tue, 16 Jun 2020 10:25:47: 64000000 INFO @ Tue, 16 Jun 2020 10:25:52: 67000000 INFO @ Tue, 16 Jun 2020 10:25:54: 65000000 INFO @ Tue, 16 Jun 2020 10:25:55: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 10:25:55: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 10:25:55: #1 total tags in treatment: 32586072 INFO @ Tue, 16 Jun 2020 10:25:55: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:25:55: #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 10:25:55: #1 tags after filtering in treatment: 28289050 INFO @ Tue, 16 Jun 2020 10:25:55: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 16 Jun 2020 10:25:55: #1 finished! INFO @ Tue, 16 Jun 2020 10:25:55: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:25:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:25:57: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:25:57: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:25:57: start model_add_line... INFO @ Tue, 16 Jun 2020 10:25:58: start X-correlation... INFO @ Tue, 16 Jun 2020 10:25:58: end of X-cor INFO @ Tue, 16 Jun 2020 10:25:58: #2 finished! INFO @ Tue, 16 Jun 2020 10:25:58: #2 predicted fragment length is 53 bps INFO @ Tue, 16 Jun 2020 10:25:58: #2 alternative fragment length(s) may be 2,53,124 bps INFO @ Tue, 16 Jun 2020 10:25:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10_model.r WARNING @ Tue, 16 Jun 2020 10:25:58: #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, 16 Jun 2020 10:25:58: #2 You may need to consider one of the other alternative d(s): 2,53,124 WARNING @ Tue, 16 Jun 2020 10:25:58: #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 10:25:58: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:25:58: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:26:00: 66000000 INFO @ Tue, 16 Jun 2020 10:26:06: 67000000 INFO @ Tue, 16 Jun 2020 10:26:09: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 10:26:09: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 10:26:09: #1 total tags in treatment: 32586072 INFO @ Tue, 16 Jun 2020 10:26:09: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:26:09: #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 10:26:09: #1 tags after filtering in treatment: 28289050 INFO @ Tue, 16 Jun 2020 10:26:09: #1 Redundant rate of treatment: 0.13 INFO @ Tue, 16 Jun 2020 10:26:09: #1 finished! INFO @ Tue, 16 Jun 2020 10:26:09: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:26:09: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:26:11: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:26:11: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:26:11: start model_add_line... INFO @ Tue, 16 Jun 2020 10:26:12: start X-correlation... INFO @ Tue, 16 Jun 2020 10:26:12: end of X-cor INFO @ Tue, 16 Jun 2020 10:26:12: #2 finished! INFO @ Tue, 16 Jun 2020 10:26:12: #2 predicted fragment length is 53 bps INFO @ Tue, 16 Jun 2020 10:26:12: #2 alternative fragment length(s) may be 2,53,124 bps INFO @ Tue, 16 Jun 2020 10:26:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20_model.r WARNING @ Tue, 16 Jun 2020 10:26:12: #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, 16 Jun 2020 10:26:12: #2 You may need to consider one of the other alternative d(s): 2,53,124 WARNING @ Tue, 16 Jun 2020 10:26:12: #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 10:26:12: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:26:12: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:26:46: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:27:00: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:27:08: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10_peaks.xls INFO @ Tue, 16 Jun 2020 10:27:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:27:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.10_summits.bed INFO @ Tue, 16 Jun 2020 10:27:08: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (387 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:27:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20_peaks.xls INFO @ Tue, 16 Jun 2020 10:27:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:27:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX4996819/SRX4996819.20_summits.bed INFO @ Tue, 16 Jun 2020 10:27:22: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (146 records, 4 fields): 1 millis CompletedMACS2peakCalling