Job ID = 16440113 SRX = SRX12178816 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T08:13:34 prefetch.2.10.7: 1) Downloading 'SRR15888098'... 2022-08-02T08:13:34 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T08:16:09 prefetch.2.10.7: HTTPS download succeed 2022-08-02T08:16:09 prefetch.2.10.7: 1) 'SRR15888098' was downloaded successfully 2022-08-02T08:16:09 prefetch.2.10.7: 'SRR15888098' has 0 unresolved dependencies Read 44936231 spots for SRR15888098/SRR15888098.sra Written 44936231 spots for SRR15888098/SRR15888098.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440919 ("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: 00:43:44 44936231 reads; of these: 44936231 (100.00%) were paired; of these: 12931732 (28.78%) aligned concordantly 0 times 23681722 (52.70%) aligned concordantly exactly 1 time 8322777 (18.52%) aligned concordantly >1 times ---- 12931732 pairs aligned concordantly 0 times; of these: 5157553 (39.88%) aligned discordantly 1 time ---- 7774179 pairs aligned 0 times concordantly or discordantly; of these: 15548358 mates make up the pairs; of these: 8952765 (57.58%) aligned 0 times 4240527 (27.27%) aligned exactly 1 time 2355066 (15.15%) aligned >1 times 90.04% overall alignment rate Time searching: 00:43:44 Overall time: 00:43:44 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 36 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] 8372761 / 37042362 = 0.2260 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 18:22:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.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 18:22:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:22:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:22:10: 1000000 INFO @ Tue, 02 Aug 2022 18:22:15: 2000000 INFO @ Tue, 02 Aug 2022 18:22:20: 3000000 INFO @ Tue, 02 Aug 2022 18:22:26: 4000000 INFO @ Tue, 02 Aug 2022 18:22:31: 5000000 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 18:22:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.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 18:22:35: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:22:35: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:22:36: 6000000 INFO @ Tue, 02 Aug 2022 18:22:41: 1000000 INFO @ Tue, 02 Aug 2022 18:22:42: 7000000 INFO @ Tue, 02 Aug 2022 18:22:47: 2000000 INFO @ Tue, 02 Aug 2022 18:22:48: 8000000 INFO @ Tue, 02 Aug 2022 18:22:53: 3000000 INFO @ Tue, 02 Aug 2022 18:22:54: 9000000 INFO @ Tue, 02 Aug 2022 18:22:59: 4000000 INFO @ Tue, 02 Aug 2022 18:23:01: 10000000 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 18:23:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.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 18:23:05: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:23:05: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:23:05: 5000000 INFO @ Tue, 02 Aug 2022 18:23:07: 11000000 INFO @ Tue, 02 Aug 2022 18:23:12: 1000000 INFO @ Tue, 02 Aug 2022 18:23:12: 6000000 INFO @ Tue, 02 Aug 2022 18:23:14: 12000000 INFO @ Tue, 02 Aug 2022 18:23:19: 7000000 INFO @ Tue, 02 Aug 2022 18:23:19: 2000000 INFO @ Tue, 02 Aug 2022 18:23:21: 13000000 INFO @ Tue, 02 Aug 2022 18:23:26: 8000000 INFO @ Tue, 02 Aug 2022 18:23:26: 3000000 INFO @ Tue, 02 Aug 2022 18:23:28: 14000000 INFO @ Tue, 02 Aug 2022 18:23:33: 9000000 INFO @ Tue, 02 Aug 2022 18:23:33: 4000000 INFO @ Tue, 02 Aug 2022 18:23:34: 15000000 INFO @ Tue, 02 Aug 2022 18:23:40: 10000000 INFO @ Tue, 02 Aug 2022 18:23:41: 5000000 INFO @ Tue, 02 Aug 2022 18:23:41: 16000000 INFO @ Tue, 02 Aug 2022 18:23:46: 11000000 INFO @ Tue, 02 Aug 2022 18:23:48: 6000000 INFO @ Tue, 02 Aug 2022 18:23:48: 17000000 INFO @ Tue, 02 Aug 2022 18:23:53: 12000000 INFO @ Tue, 02 Aug 2022 18:23:55: 7000000 INFO @ Tue, 02 Aug 2022 18:23:55: 18000000 INFO @ Tue, 02 Aug 2022 18:24:00: 13000000 INFO @ Tue, 02 Aug 2022 18:24:02: 8000000 INFO @ Tue, 02 Aug 2022 18:24:02: 19000000 INFO @ Tue, 02 Aug 2022 18:24:07: 14000000 INFO @ Tue, 02 Aug 2022 18:24:09: 9000000 INFO @ Tue, 02 Aug 2022 18:24:09: 20000000 INFO @ Tue, 02 Aug 2022 18:24:14: 15000000 INFO @ Tue, 02 Aug 2022 18:24:16: 10000000 INFO @ Tue, 02 Aug 2022 18:24:16: 21000000 INFO @ Tue, 02 Aug 2022 18:24:21: 16000000 INFO @ Tue, 02 Aug 2022 18:24:23: 22000000 INFO @ Tue, 02 Aug 2022 18:24:23: 11000000 INFO @ Tue, 02 Aug 2022 18:24:28: 17000000 INFO @ Tue, 02 Aug 2022 18:24:30: 23000000 INFO @ Tue, 02 Aug 2022 18:24:30: 12000000 INFO @ Tue, 02 Aug 2022 18:24:35: 18000000 INFO @ Tue, 02 Aug 2022 18:24:37: 24000000 INFO @ Tue, 02 Aug 2022 18:24:37: 13000000 INFO @ Tue, 02 Aug 2022 18:24:42: 19000000 INFO @ Tue, 02 Aug 2022 18:24:44: 25000000 INFO @ Tue, 02 Aug 2022 18:24:44: 14000000 INFO @ Tue, 02 Aug 2022 18:24:49: 20000000 INFO @ Tue, 02 Aug 2022 18:24:51: 26000000 INFO @ Tue, 02 Aug 2022 18:24:51: 15000000 INFO @ Tue, 02 Aug 2022 18:24:56: 21000000 INFO @ Tue, 02 Aug 2022 18:24:58: 27000000 INFO @ Tue, 02 Aug 2022 18:24:58: 16000000 INFO @ Tue, 02 Aug 2022 18:25:03: 22000000 INFO @ Tue, 02 Aug 2022 18:25:05: 28000000 INFO @ Tue, 02 Aug 2022 18:25:05: 17000000 INFO @ Tue, 02 Aug 2022 18:25:10: 23000000 INFO @ Tue, 02 Aug 2022 18:25:11: 29000000 INFO @ Tue, 02 Aug 2022 18:25:13: 18000000 INFO @ Tue, 02 Aug 2022 18:25:17: 24000000 INFO @ Tue, 02 Aug 2022 18:25:19: 30000000 INFO @ Tue, 02 Aug 2022 18:25:20: 19000000 INFO @ Tue, 02 Aug 2022 18:25:24: 25000000 INFO @ Tue, 02 Aug 2022 18:25:25: 31000000 INFO @ Tue, 02 Aug 2022 18:25:27: 20000000 INFO @ Tue, 02 Aug 2022 18:25:30: 26000000 INFO @ Tue, 02 Aug 2022 18:25:32: 32000000 INFO @ Tue, 02 Aug 2022 18:25:35: 21000000 INFO @ Tue, 02 Aug 2022 18:25:37: 27000000 INFO @ Tue, 02 Aug 2022 18:25:39: 33000000 INFO @ Tue, 02 Aug 2022 18:25:42: 22000000 INFO @ Tue, 02 Aug 2022 18:25:44: 28000000 INFO @ Tue, 02 Aug 2022 18:25:46: 34000000 INFO @ Tue, 02 Aug 2022 18:25:50: 23000000 INFO @ Tue, 02 Aug 2022 18:25:51: 29000000 INFO @ Tue, 02 Aug 2022 18:25:53: 35000000 INFO @ Tue, 02 Aug 2022 18:25:57: 24000000 INFO @ Tue, 02 Aug 2022 18:25:58: 30000000 INFO @ Tue, 02 Aug 2022 18:26:00: 36000000 INFO @ Tue, 02 Aug 2022 18:26:04: 25000000 INFO @ Tue, 02 Aug 2022 18:26:05: 31000000 INFO @ Tue, 02 Aug 2022 18:26:07: 37000000 INFO @ Tue, 02 Aug 2022 18:26:11: 32000000 INFO @ Tue, 02 Aug 2022 18:26:12: 26000000 INFO @ Tue, 02 Aug 2022 18:26:13: 38000000 INFO @ Tue, 02 Aug 2022 18:26:18: 33000000 INFO @ Tue, 02 Aug 2022 18:26:19: 27000000 INFO @ Tue, 02 Aug 2022 18:26:20: 39000000 INFO @ Tue, 02 Aug 2022 18:26:25: 34000000 INFO @ Tue, 02 Aug 2022 18:26:27: 28000000 INFO @ Tue, 02 Aug 2022 18:26:27: 40000000 INFO @ Tue, 02 Aug 2022 18:26:32: 35000000 INFO @ Tue, 02 Aug 2022 18:26:34: 41000000 INFO @ Tue, 02 Aug 2022 18:26:34: 29000000 INFO @ Tue, 02 Aug 2022 18:26:38: 36000000 INFO @ Tue, 02 Aug 2022 18:26:41: 42000000 INFO @ Tue, 02 Aug 2022 18:26:42: 30000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 18:26:45: 37000000 INFO @ Tue, 02 Aug 2022 18:26:47: 43000000 INFO @ Tue, 02 Aug 2022 18:26:49: 31000000 INFO @ Tue, 02 Aug 2022 18:26:52: 38000000 INFO @ Tue, 02 Aug 2022 18:26:54: 44000000 INFO @ Tue, 02 Aug 2022 18:26:56: 32000000 INFO @ Tue, 02 Aug 2022 18:26:59: 39000000 INFO @ Tue, 02 Aug 2022 18:27:01: 45000000 INFO @ Tue, 02 Aug 2022 18:27:04: 33000000 INFO @ Tue, 02 Aug 2022 18:27:06: 40000000 INFO @ Tue, 02 Aug 2022 18:27:08: 46000000 INFO @ Tue, 02 Aug 2022 18:27:11: 34000000 INFO @ Tue, 02 Aug 2022 18:27:13: 41000000 INFO @ Tue, 02 Aug 2022 18:27:15: 47000000 INFO @ Tue, 02 Aug 2022 18:27:19: 35000000 INFO @ Tue, 02 Aug 2022 18:27:20: 42000000 INFO @ Tue, 02 Aug 2022 18:27:22: 48000000 INFO @ Tue, 02 Aug 2022 18:27:26: 36000000 INFO @ Tue, 02 Aug 2022 18:27:27: 43000000 INFO @ Tue, 02 Aug 2022 18:27:29: 49000000 INFO @ Tue, 02 Aug 2022 18:27:34: 37000000 INFO @ Tue, 02 Aug 2022 18:27:34: 44000000 INFO @ Tue, 02 Aug 2022 18:27:36: 50000000 INFO @ Tue, 02 Aug 2022 18:27:42: 45000000 INFO @ Tue, 02 Aug 2022 18:27:42: 38000000 INFO @ Tue, 02 Aug 2022 18:27:44: 51000000 INFO @ Tue, 02 Aug 2022 18:27:48: 46000000 INFO @ Tue, 02 Aug 2022 18:27:49: 39000000 INFO @ Tue, 02 Aug 2022 18:27:51: 52000000 INFO @ Tue, 02 Aug 2022 18:27:55: 47000000 INFO @ Tue, 02 Aug 2022 18:27:57: 40000000 INFO @ Tue, 02 Aug 2022 18:27:58: 53000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 18:28:02: 48000000 INFO @ Tue, 02 Aug 2022 18:28:04: 41000000 INFO @ Tue, 02 Aug 2022 18:28:05: 54000000 INFO @ Tue, 02 Aug 2022 18:28:08: 49000000 INFO @ Tue, 02 Aug 2022 18:28:12: 55000000 INFO @ Tue, 02 Aug 2022 18:28:12: 42000000 INFO @ Tue, 02 Aug 2022 18:28:15: 50000000 INFO @ Tue, 02 Aug 2022 18:28:19: 56000000 INFO @ Tue, 02 Aug 2022 18:28:19: 43000000 INFO @ Tue, 02 Aug 2022 18:28:22: 51000000 INFO @ Tue, 02 Aug 2022 18:28:26: 57000000 INFO @ Tue, 02 Aug 2022 18:28:27: 44000000 INFO @ Tue, 02 Aug 2022 18:28:29: 52000000 INFO @ Tue, 02 Aug 2022 18:28:33: 58000000 INFO @ Tue, 02 Aug 2022 18:28:34: 45000000 INFO @ Tue, 02 Aug 2022 18:28:36: 53000000 INFO @ Tue, 02 Aug 2022 18:28:40: 59000000 INFO @ Tue, 02 Aug 2022 18:28:42: 46000000 INFO @ Tue, 02 Aug 2022 18:28:42: 54000000 INFO @ Tue, 02 Aug 2022 18:28:47: 60000000 INFO @ Tue, 02 Aug 2022 18:28:49: 47000000 INFO @ Tue, 02 Aug 2022 18:28:49: 55000000 INFO @ Tue, 02 Aug 2022 18:28:54: 61000000 INFO @ Tue, 02 Aug 2022 18:28:56: 56000000 INFO @ Tue, 02 Aug 2022 18:28:57: 48000000 INFO @ Tue, 02 Aug 2022 18:29:00: 62000000 INFO @ Tue, 02 Aug 2022 18:29:03: 57000000 INFO @ Tue, 02 Aug 2022 18:29:04: 49000000 INFO @ Tue, 02 Aug 2022 18:29:07: 63000000 INFO @ Tue, 02 Aug 2022 18:29:09: 58000000 INFO @ Tue, 02 Aug 2022 18:29:11: 50000000 INFO @ Tue, 02 Aug 2022 18:29:14: 64000000 INFO @ Tue, 02 Aug 2022 18:29:16: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:29:16: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:29:16: #1 total tags in treatment: 24166816 INFO @ Tue, 02 Aug 2022 18:29:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:29:16: #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 18:29:16: 59000000 INFO @ Tue, 02 Aug 2022 18:29:16: #1 tags after filtering in treatment: 16698952 INFO @ Tue, 02 Aug 2022 18:29:16: #1 Redundant rate of treatment: 0.31 INFO @ Tue, 02 Aug 2022 18:29:16: #1 finished! INFO @ Tue, 02 Aug 2022 18:29:16: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:29:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:29:17: #2 number of paired peaks: 330 WARNING @ Tue, 02 Aug 2022 18:29:17: Fewer paired peaks (330) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 330 pairs to build model! INFO @ Tue, 02 Aug 2022 18:29:17: start model_add_line... INFO @ Tue, 02 Aug 2022 18:29:17: start X-correlation... INFO @ Tue, 02 Aug 2022 18:29:18: end of X-cor INFO @ Tue, 02 Aug 2022 18:29:18: #2 finished! INFO @ Tue, 02 Aug 2022 18:29:18: #2 predicted fragment length is 134 bps INFO @ Tue, 02 Aug 2022 18:29:18: #2 alternative fragment length(s) may be 4,122,125,129,134 bps INFO @ Tue, 02 Aug 2022 18:29:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05_model.r INFO @ Tue, 02 Aug 2022 18:29:18: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:29:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:29:19: 51000000 INFO @ Tue, 02 Aug 2022 18:29:23: 60000000 INFO @ Tue, 02 Aug 2022 18:29:27: 52000000 INFO @ Tue, 02 Aug 2022 18:29:29: 61000000 INFO @ Tue, 02 Aug 2022 18:29:34: 53000000 INFO @ Tue, 02 Aug 2022 18:29:36: 62000000 INFO @ Tue, 02 Aug 2022 18:29:42: 54000000 INFO @ Tue, 02 Aug 2022 18:29:43: 63000000 INFO @ Tue, 02 Aug 2022 18:29:49: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:29:49: 55000000 INFO @ Tue, 02 Aug 2022 18:29:49: 64000000 INFO @ Tue, 02 Aug 2022 18:29:51: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:29:51: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:29:51: #1 total tags in treatment: 24166816 INFO @ Tue, 02 Aug 2022 18:29:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:29:51: #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 18:29:51: #1 tags after filtering in treatment: 16698952 INFO @ Tue, 02 Aug 2022 18:29:51: #1 Redundant rate of treatment: 0.31 INFO @ Tue, 02 Aug 2022 18:29:51: #1 finished! INFO @ Tue, 02 Aug 2022 18:29:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:29:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:29:52: #2 number of paired peaks: 330 WARNING @ Tue, 02 Aug 2022 18:29:52: Fewer paired peaks (330) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 330 pairs to build model! INFO @ Tue, 02 Aug 2022 18:29:52: start model_add_line... INFO @ Tue, 02 Aug 2022 18:29:52: start X-correlation... INFO @ Tue, 02 Aug 2022 18:29:52: end of X-cor INFO @ Tue, 02 Aug 2022 18:29:52: #2 finished! INFO @ Tue, 02 Aug 2022 18:29:52: #2 predicted fragment length is 134 bps INFO @ Tue, 02 Aug 2022 18:29:52: #2 alternative fragment length(s) may be 4,122,125,129,134 bps INFO @ Tue, 02 Aug 2022 18:29:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10_model.r INFO @ Tue, 02 Aug 2022 18:29:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:29:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:29:57: 56000000 INFO @ Tue, 02 Aug 2022 18:30:04: 57000000 INFO @ Tue, 02 Aug 2022 18:30:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05_peaks.xls INFO @ Tue, 02 Aug 2022 18:30:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:30:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.05_summits.bed INFO @ Tue, 02 Aug 2022 18:30:05: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (11197 records, 4 fields): 66 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:30:10: 58000000 INFO @ Tue, 02 Aug 2022 18:30:17: 59000000 INFO @ Tue, 02 Aug 2022 18:30:24: 60000000 INFO @ Tue, 02 Aug 2022 18:30:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:30:31: 61000000 INFO @ Tue, 02 Aug 2022 18:30:37: 62000000 INFO @ Tue, 02 Aug 2022 18:30:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10_peaks.xls INFO @ Tue, 02 Aug 2022 18:30:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:30:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.10_summits.bed INFO @ Tue, 02 Aug 2022 18:30:41: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (6787 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:30:43: 63000000 INFO @ Tue, 02 Aug 2022 18:30:49: 64000000 INFO @ Tue, 02 Aug 2022 18:30:51: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:30:51: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:30:51: #1 total tags in treatment: 24166816 INFO @ Tue, 02 Aug 2022 18:30:51: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:30:51: #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 18:30:51: #1 tags after filtering in treatment: 16698952 INFO @ Tue, 02 Aug 2022 18:30:51: #1 Redundant rate of treatment: 0.31 INFO @ Tue, 02 Aug 2022 18:30:51: #1 finished! INFO @ Tue, 02 Aug 2022 18:30:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:30:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:30:52: #2 number of paired peaks: 330 WARNING @ Tue, 02 Aug 2022 18:30:52: Fewer paired peaks (330) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 330 pairs to build model! INFO @ Tue, 02 Aug 2022 18:30:52: start model_add_line... INFO @ Tue, 02 Aug 2022 18:30:52: start X-correlation... INFO @ Tue, 02 Aug 2022 18:30:52: end of X-cor INFO @ Tue, 02 Aug 2022 18:30:52: #2 finished! INFO @ Tue, 02 Aug 2022 18:30:52: #2 predicted fragment length is 134 bps INFO @ Tue, 02 Aug 2022 18:30:52: #2 alternative fragment length(s) may be 4,122,125,129,134 bps INFO @ Tue, 02 Aug 2022 18:30:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20_model.r INFO @ Tue, 02 Aug 2022 18:30:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:30:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:31:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:31:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20_peaks.xls INFO @ Tue, 02 Aug 2022 18:31:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:31:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178816/SRX12178816.20_summits.bed INFO @ Tue, 02 Aug 2022 18:31:41: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (2165 records, 4 fields): 30 millis CompletedMACS2peakCalling