Job ID = 6367664 SRX = SRX3733158 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-15T23:29:20 prefetch.2.10.7: 1) Downloading 'SRR6760671'... 2020-06-15T23:29:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:42:00 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:42:00 prefetch.2.10.7: 1) 'SRR6760671' was downloaded successfully 2020-06-15T23:42:00 prefetch.2.10.7: 'SRR6760671' has 0 unresolved dependencies Read 46643726 spots for SRR6760671/SRR6760671.sra Written 46643726 spots for SRR6760671/SRR6760671.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: 00:49:22 46643726 reads; of these: 46643726 (100.00%) were paired; of these: 2887950 (6.19%) aligned concordantly 0 times 41222381 (88.38%) aligned concordantly exactly 1 time 2533395 (5.43%) aligned concordantly >1 times ---- 2887950 pairs aligned concordantly 0 times; of these: 1463996 (50.69%) aligned discordantly 1 time ---- 1423954 pairs aligned 0 times concordantly or discordantly; of these: 2847908 mates make up the pairs; of these: 1562104 (54.85%) aligned 0 times 934826 (32.83%) aligned exactly 1 time 350978 (12.32%) aligned >1 times 98.33% overall alignment rate Time searching: 00:49:22 Overall time: 00:49:22 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 40 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] 13443066 / 44843388 = 0.2998 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 10:02:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.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 10:02:33: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:02:33: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:02:38: 1000000 INFO @ Tue, 16 Jun 2020 10:02:44: 2000000 INFO @ Tue, 16 Jun 2020 10:02:50: 3000000 INFO @ Tue, 16 Jun 2020 10:02:55: 4000000 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 10:03:01: 5000000 INFO @ Tue, 16 Jun 2020 10:03:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.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 10:03:02: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:03:02: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:03:07: 6000000 INFO @ Tue, 16 Jun 2020 10:03:09: 1000000 INFO @ Tue, 16 Jun 2020 10:03:13: 7000000 INFO @ Tue, 16 Jun 2020 10:03:17: 2000000 INFO @ Tue, 16 Jun 2020 10:03:19: 8000000 INFO @ Tue, 16 Jun 2020 10:03:24: 3000000 INFO @ Tue, 16 Jun 2020 10:03:25: 9000000 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 10:03:31: 10000000 INFO @ Tue, 16 Jun 2020 10:03:31: 4000000 INFO @ Tue, 16 Jun 2020 10:03:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.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 10:03:32: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:03:32: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:03:38: 11000000 INFO @ Tue, 16 Jun 2020 10:03:39: 5000000 INFO @ Tue, 16 Jun 2020 10:03:40: 1000000 INFO @ Tue, 16 Jun 2020 10:03:44: 12000000 INFO @ Tue, 16 Jun 2020 10:03:46: 6000000 INFO @ Tue, 16 Jun 2020 10:03:47: 2000000 INFO @ Tue, 16 Jun 2020 10:03:50: 13000000 INFO @ Tue, 16 Jun 2020 10:03:53: 7000000 INFO @ Tue, 16 Jun 2020 10:03:54: 3000000 INFO @ Tue, 16 Jun 2020 10:03:56: 14000000 INFO @ Tue, 16 Jun 2020 10:04:01: 8000000 INFO @ Tue, 16 Jun 2020 10:04:02: 4000000 INFO @ Tue, 16 Jun 2020 10:04:03: 15000000 INFO @ Tue, 16 Jun 2020 10:04:08: 9000000 INFO @ Tue, 16 Jun 2020 10:04:09: 16000000 INFO @ Tue, 16 Jun 2020 10:04:09: 5000000 INFO @ Tue, 16 Jun 2020 10:04:15: 17000000 INFO @ Tue, 16 Jun 2020 10:04:16: 10000000 INFO @ Tue, 16 Jun 2020 10:04:16: 6000000 INFO @ Tue, 16 Jun 2020 10:04:21: 18000000 INFO @ Tue, 16 Jun 2020 10:04:23: 11000000 INFO @ Tue, 16 Jun 2020 10:04:24: 7000000 INFO @ Tue, 16 Jun 2020 10:04:27: 19000000 INFO @ Tue, 16 Jun 2020 10:04:31: 12000000 INFO @ Tue, 16 Jun 2020 10:04:31: 8000000 INFO @ Tue, 16 Jun 2020 10:04:34: 20000000 INFO @ Tue, 16 Jun 2020 10:04:38: 13000000 INFO @ Tue, 16 Jun 2020 10:04:38: 9000000 INFO @ Tue, 16 Jun 2020 10:04:40: 21000000 INFO @ Tue, 16 Jun 2020 10:04:45: 14000000 INFO @ Tue, 16 Jun 2020 10:04:46: 10000000 INFO @ Tue, 16 Jun 2020 10:04:46: 22000000 INFO @ Tue, 16 Jun 2020 10:04:52: 23000000 INFO @ Tue, 16 Jun 2020 10:04:52: 15000000 INFO @ Tue, 16 Jun 2020 10:04:53: 11000000 INFO @ Tue, 16 Jun 2020 10:04:58: 24000000 INFO @ Tue, 16 Jun 2020 10:05:00: 16000000 INFO @ Tue, 16 Jun 2020 10:05:01: 12000000 INFO @ Tue, 16 Jun 2020 10:05:05: 25000000 INFO @ Tue, 16 Jun 2020 10:05:07: 17000000 INFO @ Tue, 16 Jun 2020 10:05:08: 13000000 INFO @ Tue, 16 Jun 2020 10:05:11: 26000000 INFO @ Tue, 16 Jun 2020 10:05:14: 18000000 INFO @ Tue, 16 Jun 2020 10:05:15: 14000000 INFO @ Tue, 16 Jun 2020 10:05:17: 27000000 INFO @ Tue, 16 Jun 2020 10:05:21: 19000000 INFO @ Tue, 16 Jun 2020 10:05:23: 15000000 INFO @ Tue, 16 Jun 2020 10:05:24: 28000000 INFO @ Tue, 16 Jun 2020 10:05:28: 20000000 INFO @ Tue, 16 Jun 2020 10:05:30: 16000000 INFO @ Tue, 16 Jun 2020 10:05:30: 29000000 INFO @ Tue, 16 Jun 2020 10:05:35: 21000000 INFO @ Tue, 16 Jun 2020 10:05:37: 30000000 INFO @ Tue, 16 Jun 2020 10:05:37: 17000000 INFO @ Tue, 16 Jun 2020 10:05:43: 22000000 INFO @ Tue, 16 Jun 2020 10:05:43: 31000000 INFO @ Tue, 16 Jun 2020 10:05:44: 18000000 INFO @ Tue, 16 Jun 2020 10:05:50: 32000000 INFO @ Tue, 16 Jun 2020 10:05:50: 23000000 INFO @ Tue, 16 Jun 2020 10:05:51: 19000000 INFO @ Tue, 16 Jun 2020 10:05:56: 33000000 INFO @ Tue, 16 Jun 2020 10:05:57: 24000000 INFO @ Tue, 16 Jun 2020 10:05:59: 20000000 INFO @ Tue, 16 Jun 2020 10:06:02: 34000000 INFO @ Tue, 16 Jun 2020 10:06:04: 25000000 INFO @ Tue, 16 Jun 2020 10:06:06: 21000000 INFO @ Tue, 16 Jun 2020 10:06:09: 35000000 INFO @ Tue, 16 Jun 2020 10:06:11: 26000000 INFO @ Tue, 16 Jun 2020 10:06:13: 22000000 INFO @ Tue, 16 Jun 2020 10:06:15: 36000000 INFO @ Tue, 16 Jun 2020 10:06:18: 27000000 INFO @ Tue, 16 Jun 2020 10:06:20: 23000000 INFO @ Tue, 16 Jun 2020 10:06:22: 37000000 INFO @ Tue, 16 Jun 2020 10:06:25: 28000000 INFO @ Tue, 16 Jun 2020 10:06:28: 24000000 INFO @ Tue, 16 Jun 2020 10:06:29: 38000000 INFO @ Tue, 16 Jun 2020 10:06:32: 29000000 INFO @ Tue, 16 Jun 2020 10:06:35: 25000000 INFO @ Tue, 16 Jun 2020 10:06:35: 39000000 INFO @ Tue, 16 Jun 2020 10:06:39: 30000000 INFO @ Tue, 16 Jun 2020 10:06:42: 40000000 INFO @ Tue, 16 Jun 2020 10:06:42: 26000000 INFO @ Tue, 16 Jun 2020 10:06:46: 31000000 INFO @ Tue, 16 Jun 2020 10:06:49: 41000000 INFO @ Tue, 16 Jun 2020 10:06:50: 27000000 INFO @ Tue, 16 Jun 2020 10:06:53: 32000000 INFO @ Tue, 16 Jun 2020 10:06:56: 42000000 INFO @ Tue, 16 Jun 2020 10:06:57: 28000000 INFO @ Tue, 16 Jun 2020 10:07:00: 33000000 INFO @ Tue, 16 Jun 2020 10:07:02: 43000000 INFO @ Tue, 16 Jun 2020 10:07:04: 29000000 INFO @ Tue, 16 Jun 2020 10:07:07: 34000000 INFO @ Tue, 16 Jun 2020 10:07:09: 44000000 INFO @ Tue, 16 Jun 2020 10:07:12: 30000000 INFO @ Tue, 16 Jun 2020 10:07:14: 35000000 INFO @ Tue, 16 Jun 2020 10:07:16: 45000000 INFO @ Tue, 16 Jun 2020 10:07:19: 31000000 INFO @ Tue, 16 Jun 2020 10:07:21: 36000000 INFO @ Tue, 16 Jun 2020 10:07:23: 46000000 INFO @ Tue, 16 Jun 2020 10:07:26: 32000000 INFO @ Tue, 16 Jun 2020 10:07:29: 37000000 INFO @ Tue, 16 Jun 2020 10:07:30: 47000000 INFO @ Tue, 16 Jun 2020 10:07:34: 33000000 INFO @ Tue, 16 Jun 2020 10:07:36: 38000000 INFO @ Tue, 16 Jun 2020 10:07:36: 48000000 INFO @ Tue, 16 Jun 2020 10:07:41: 34000000 INFO @ Tue, 16 Jun 2020 10:07:43: 39000000 INFO @ Tue, 16 Jun 2020 10:07:43: 49000000 INFO @ Tue, 16 Jun 2020 10:07:48: 35000000 INFO @ Tue, 16 Jun 2020 10:07:50: 50000000 INFO @ Tue, 16 Jun 2020 10:07:50: 40000000 INFO @ Tue, 16 Jun 2020 10:07:56: 36000000 INFO @ Tue, 16 Jun 2020 10:07:56: 51000000 INFO @ Tue, 16 Jun 2020 10:07:57: 41000000 INFO @ Tue, 16 Jun 2020 10:08:03: 52000000 INFO @ Tue, 16 Jun 2020 10:08:03: 37000000 INFO @ Tue, 16 Jun 2020 10:08:04: 42000000 INFO @ Tue, 16 Jun 2020 10:08:09: 53000000 INFO @ Tue, 16 Jun 2020 10:08:10: 38000000 INFO @ Tue, 16 Jun 2020 10:08:11: 43000000 INFO @ Tue, 16 Jun 2020 10:08:16: 54000000 INFO @ Tue, 16 Jun 2020 10:08:18: 44000000 INFO @ Tue, 16 Jun 2020 10:08:18: 39000000 INFO @ Tue, 16 Jun 2020 10:08:22: 55000000 INFO @ Tue, 16 Jun 2020 10:08:25: 45000000 INFO @ Tue, 16 Jun 2020 10:08:25: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:08:29: 56000000 INFO @ Tue, 16 Jun 2020 10:08:32: 46000000 INFO @ Tue, 16 Jun 2020 10:08:33: 41000000 INFO @ Tue, 16 Jun 2020 10:08:35: 57000000 INFO @ Tue, 16 Jun 2020 10:08:39: 47000000 INFO @ Tue, 16 Jun 2020 10:08:40: 42000000 INFO @ Tue, 16 Jun 2020 10:08:42: 58000000 INFO @ Tue, 16 Jun 2020 10:08:46: 48000000 INFO @ Tue, 16 Jun 2020 10:08:47: 43000000 INFO @ Tue, 16 Jun 2020 10:08:49: 59000000 INFO @ Tue, 16 Jun 2020 10:08:53: 49000000 INFO @ Tue, 16 Jun 2020 10:08:54: 44000000 INFO @ Tue, 16 Jun 2020 10:08:55: 60000000 INFO @ Tue, 16 Jun 2020 10:09:00: 50000000 INFO @ Tue, 16 Jun 2020 10:09:01: 45000000 INFO @ Tue, 16 Jun 2020 10:09:01: 61000000 INFO @ Tue, 16 Jun 2020 10:09:07: 51000000 INFO @ Tue, 16 Jun 2020 10:09:08: 62000000 INFO @ Tue, 16 Jun 2020 10:09:08: 46000000 INFO @ Tue, 16 Jun 2020 10:09:14: 63000000 INFO @ Tue, 16 Jun 2020 10:09:14: 52000000 INFO @ Tue, 16 Jun 2020 10:09:15: 47000000 INFO @ Tue, 16 Jun 2020 10:09:20: 64000000 INFO @ Tue, 16 Jun 2020 10:09:21: 53000000 INFO @ Tue, 16 Jun 2020 10:09:23: 48000000 INFO @ Tue, 16 Jun 2020 10:09:26: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 10:09:26: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 10:09:26: #1 total tags in treatment: 30470887 INFO @ Tue, 16 Jun 2020 10:09:26: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:09:26: #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 10:09:26: #1 tags after filtering in treatment: 23891102 INFO @ Tue, 16 Jun 2020 10:09:26: #1 Redundant rate of treatment: 0.22 INFO @ Tue, 16 Jun 2020 10:09:26: #1 finished! INFO @ Tue, 16 Jun 2020 10:09:26: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:09:26: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:09:28: #2 number of paired peaks: 219 WARNING @ Tue, 16 Jun 2020 10:09:28: Fewer paired peaks (219) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 219 pairs to build model! INFO @ Tue, 16 Jun 2020 10:09:28: start model_add_line... INFO @ Tue, 16 Jun 2020 10:09:28: 54000000 INFO @ Tue, 16 Jun 2020 10:09:28: start X-correlation... INFO @ Tue, 16 Jun 2020 10:09:28: end of X-cor INFO @ Tue, 16 Jun 2020 10:09:28: #2 finished! INFO @ Tue, 16 Jun 2020 10:09:28: #2 predicted fragment length is 204 bps INFO @ Tue, 16 Jun 2020 10:09:28: #2 alternative fragment length(s) may be 4,178,204,221 bps INFO @ Tue, 16 Jun 2020 10:09:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05_model.r INFO @ Tue, 16 Jun 2020 10:09:28: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:09:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:09:30: 49000000 INFO @ Tue, 16 Jun 2020 10:09:35: 55000000 INFO @ Tue, 16 Jun 2020 10:09:37: 50000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 10:09:42: 56000000 INFO @ Tue, 16 Jun 2020 10:09:44: 51000000 INFO @ Tue, 16 Jun 2020 10:09:49: 57000000 INFO @ Tue, 16 Jun 2020 10:09:51: 52000000 INFO @ Tue, 16 Jun 2020 10:09:56: 58000000 INFO @ Tue, 16 Jun 2020 10:09:58: 53000000 INFO @ Tue, 16 Jun 2020 10:10:03: 59000000 INFO @ Tue, 16 Jun 2020 10:10:05: 54000000 INFO @ Tue, 16 Jun 2020 10:10:10: 60000000 INFO @ Tue, 16 Jun 2020 10:10:12: 55000000 INFO @ Tue, 16 Jun 2020 10:10:17: 61000000 INFO @ Tue, 16 Jun 2020 10:10:19: 56000000 INFO @ Tue, 16 Jun 2020 10:10:20: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:10:23: 62000000 INFO @ Tue, 16 Jun 2020 10:10:26: 57000000 INFO @ Tue, 16 Jun 2020 10:10:30: 63000000 INFO @ Tue, 16 Jun 2020 10:10:33: 58000000 INFO @ Tue, 16 Jun 2020 10:10:37: 64000000 INFO @ Tue, 16 Jun 2020 10:10:40: 59000000 INFO @ Tue, 16 Jun 2020 10:10:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05_peaks.xls INFO @ Tue, 16 Jun 2020 10:10:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:10:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.05_summits.bed INFO @ Tue, 16 Jun 2020 10:10:42: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5659 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:10:43: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 10:10:43: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 10:10:43: #1 total tags in treatment: 30470887 INFO @ Tue, 16 Jun 2020 10:10:43: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:10:43: #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 10:10:44: #1 tags after filtering in treatment: 23891102 INFO @ Tue, 16 Jun 2020 10:10:44: #1 Redundant rate of treatment: 0.22 INFO @ Tue, 16 Jun 2020 10:10:44: #1 finished! INFO @ Tue, 16 Jun 2020 10:10:44: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:10:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:10:46: #2 number of paired peaks: 219 WARNING @ Tue, 16 Jun 2020 10:10:46: Fewer paired peaks (219) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 219 pairs to build model! INFO @ Tue, 16 Jun 2020 10:10:46: start model_add_line... INFO @ Tue, 16 Jun 2020 10:10:46: start X-correlation... INFO @ Tue, 16 Jun 2020 10:10:46: end of X-cor INFO @ Tue, 16 Jun 2020 10:10:46: #2 finished! INFO @ Tue, 16 Jun 2020 10:10:46: #2 predicted fragment length is 204 bps INFO @ Tue, 16 Jun 2020 10:10:46: #2 alternative fragment length(s) may be 4,178,204,221 bps INFO @ Tue, 16 Jun 2020 10:10:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10_model.r INFO @ Tue, 16 Jun 2020 10:10:46: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:10:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:10:47: 60000000 INFO @ Tue, 16 Jun 2020 10:10:54: 61000000 INFO @ Tue, 16 Jun 2020 10:11:01: 62000000 INFO @ Tue, 16 Jun 2020 10:11:07: 63000000 INFO @ Tue, 16 Jun 2020 10:11:14: 64000000 INFO @ Tue, 16 Jun 2020 10:11:20: #1 tag size is determined as 76 bps INFO @ Tue, 16 Jun 2020 10:11:20: #1 tag size = 76 INFO @ Tue, 16 Jun 2020 10:11:20: #1 total tags in treatment: 30470887 INFO @ Tue, 16 Jun 2020 10:11:20: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:11:20: #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 10:11:21: #1 tags after filtering in treatment: 23891102 INFO @ Tue, 16 Jun 2020 10:11:21: #1 Redundant rate of treatment: 0.22 INFO @ Tue, 16 Jun 2020 10:11:21: #1 finished! INFO @ Tue, 16 Jun 2020 10:11:21: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:11:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:11:22: #2 number of paired peaks: 219 WARNING @ Tue, 16 Jun 2020 10:11:22: Fewer paired peaks (219) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 219 pairs to build model! INFO @ Tue, 16 Jun 2020 10:11:22: start model_add_line... INFO @ Tue, 16 Jun 2020 10:11:23: start X-correlation... INFO @ Tue, 16 Jun 2020 10:11:23: end of X-cor INFO @ Tue, 16 Jun 2020 10:11:23: #2 finished! INFO @ Tue, 16 Jun 2020 10:11:23: #2 predicted fragment length is 204 bps INFO @ Tue, 16 Jun 2020 10:11:23: #2 alternative fragment length(s) may be 4,178,204,221 bps INFO @ Tue, 16 Jun 2020 10:11:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20_model.r INFO @ Tue, 16 Jun 2020 10:11:23: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:11:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:11:41: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:12:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10_peaks.xls INFO @ Tue, 16 Jun 2020 10:12:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:12:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.10_summits.bed INFO @ Tue, 16 Jun 2020 10:12:05: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3070 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:12:18: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:12:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20_peaks.xls INFO @ Tue, 16 Jun 2020 10:12:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:12:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX3733158/SRX3733158.20_summits.bed INFO @ Tue, 16 Jun 2020 10:12:43: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1283 records, 4 fields): 3 millis CompletedMACS2peakCalling