Job ID = 16440099 SRX = SRX12178806 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T08:07:54 prefetch.2.10.7: 1) Downloading 'SRR15888108'... 2022-08-02T08:07:54 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T08:10:36 prefetch.2.10.7: HTTPS download succeed 2022-08-02T08:10:36 prefetch.2.10.7: 1) 'SRR15888108' was downloaded successfully 2022-08-02T08:10:36 prefetch.2.10.7: 'SRR15888108' has 0 unresolved dependencies Read 56277050 spots for SRR15888108/SRR15888108.sra Written 56277050 spots for SRR15888108/SRR15888108.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441186 ("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: 01:26:41 56277050 reads; of these: 56277050 (100.00%) were paired; of these: 19435150 (34.53%) aligned concordantly 0 times 31652877 (56.24%) aligned concordantly exactly 1 time 5189023 (9.22%) aligned concordantly >1 times ---- 19435150 pairs aligned concordantly 0 times; of these: 7064737 (36.35%) aligned discordantly 1 time ---- 12370413 pairs aligned 0 times concordantly or discordantly; of these: 24740826 mates make up the pairs; of these: 15795883 (63.85%) aligned 0 times 6708509 (27.12%) aligned exactly 1 time 2236434 (9.04%) aligned >1 times 85.97% overall alignment rate Time searching: 01:26:42 Overall time: 01:26:42 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] 8273148 / 43786653 = 0.1889 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 19:22:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.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 19:22:12: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:22:12: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:22:24: 1000000 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 19:22:37: 2000000 INFO @ Tue, 02 Aug 2022 19:22:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.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 19:22:40: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:22:40: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:22:51: 3000000 INFO @ Tue, 02 Aug 2022 19:22:51: 1000000 INFO @ Tue, 02 Aug 2022 19:23:02: 2000000 INFO @ Tue, 02 Aug 2022 19:23:03: 4000000 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 19:23:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.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 19:23:10: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:23:10: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:23:13: 3000000 INFO @ Tue, 02 Aug 2022 19:23:16: 5000000 INFO @ Tue, 02 Aug 2022 19:23:24: 4000000 INFO @ Tue, 02 Aug 2022 19:23:24: 1000000 INFO @ Tue, 02 Aug 2022 19:23:28: 6000000 INFO @ Tue, 02 Aug 2022 19:23:36: 5000000 INFO @ Tue, 02 Aug 2022 19:23:38: 2000000 INFO @ Tue, 02 Aug 2022 19:23:41: 7000000 INFO @ Tue, 02 Aug 2022 19:23:48: 6000000 INFO @ Tue, 02 Aug 2022 19:23:51: 3000000 INFO @ Tue, 02 Aug 2022 19:23:53: 8000000 INFO @ Tue, 02 Aug 2022 19:23:58: 7000000 INFO @ Tue, 02 Aug 2022 19:24:04: 4000000 INFO @ Tue, 02 Aug 2022 19:24:06: 9000000 INFO @ Tue, 02 Aug 2022 19:24:09: 8000000 INFO @ Tue, 02 Aug 2022 19:24:18: 5000000 INFO @ Tue, 02 Aug 2022 19:24:19: 10000000 INFO @ Tue, 02 Aug 2022 19:24:22: 9000000 INFO @ Tue, 02 Aug 2022 19:24:31: 6000000 INFO @ Tue, 02 Aug 2022 19:24:32: 11000000 INFO @ Tue, 02 Aug 2022 19:24:35: 10000000 INFO @ Tue, 02 Aug 2022 19:24:44: 7000000 INFO @ Tue, 02 Aug 2022 19:24:44: 12000000 INFO @ Tue, 02 Aug 2022 19:24:46: 11000000 INFO @ Tue, 02 Aug 2022 19:24:57: 8000000 INFO @ Tue, 02 Aug 2022 19:24:58: 13000000 INFO @ Tue, 02 Aug 2022 19:24:58: 12000000 INFO @ Tue, 02 Aug 2022 19:25:10: 14000000 INFO @ Tue, 02 Aug 2022 19:25:10: 9000000 INFO @ Tue, 02 Aug 2022 19:25:11: 13000000 INFO @ Tue, 02 Aug 2022 19:25:22: 15000000 INFO @ Tue, 02 Aug 2022 19:25:23: 10000000 INFO @ Tue, 02 Aug 2022 19:25:23: 14000000 INFO @ Tue, 02 Aug 2022 19:25:33: 16000000 INFO @ Tue, 02 Aug 2022 19:25:36: 15000000 INFO @ Tue, 02 Aug 2022 19:25:36: 11000000 INFO @ Tue, 02 Aug 2022 19:25:45: 17000000 INFO @ Tue, 02 Aug 2022 19:25:49: 16000000 INFO @ Tue, 02 Aug 2022 19:25:49: 12000000 INFO @ Tue, 02 Aug 2022 19:25:57: 18000000 INFO @ Tue, 02 Aug 2022 19:26:02: 13000000 INFO @ Tue, 02 Aug 2022 19:26:02: 17000000 INFO @ Tue, 02 Aug 2022 19:26:10: 19000000 INFO @ Tue, 02 Aug 2022 19:26:15: 14000000 INFO @ Tue, 02 Aug 2022 19:26:16: 18000000 INFO @ Tue, 02 Aug 2022 19:26:22: 20000000 INFO @ Tue, 02 Aug 2022 19:26:27: 15000000 INFO @ Tue, 02 Aug 2022 19:26:30: 19000000 INFO @ Tue, 02 Aug 2022 19:26:35: 21000000 INFO @ Tue, 02 Aug 2022 19:26:39: 16000000 INFO @ Tue, 02 Aug 2022 19:26:42: 20000000 INFO @ Tue, 02 Aug 2022 19:26:48: 22000000 INFO @ Tue, 02 Aug 2022 19:26:51: 17000000 INFO @ Tue, 02 Aug 2022 19:26:54: 21000000 INFO @ Tue, 02 Aug 2022 19:27:00: 23000000 INFO @ Tue, 02 Aug 2022 19:27:03: 18000000 INFO @ Tue, 02 Aug 2022 19:27:07: 22000000 INFO @ Tue, 02 Aug 2022 19:27:12: 24000000 INFO @ Tue, 02 Aug 2022 19:27:15: 19000000 INFO @ Tue, 02 Aug 2022 19:27:20: 23000000 INFO @ Tue, 02 Aug 2022 19:27:23: 25000000 INFO @ Tue, 02 Aug 2022 19:27:27: 20000000 INFO @ Tue, 02 Aug 2022 19:27:34: 24000000 INFO @ Tue, 02 Aug 2022 19:27:35: 26000000 INFO @ Tue, 02 Aug 2022 19:27:40: 21000000 INFO @ Tue, 02 Aug 2022 19:27:46: 27000000 INFO @ Tue, 02 Aug 2022 19:27:47: 25000000 INFO @ Tue, 02 Aug 2022 19:27:52: 22000000 INFO @ Tue, 02 Aug 2022 19:27:58: 28000000 INFO @ Tue, 02 Aug 2022 19:28:01: 26000000 INFO @ Tue, 02 Aug 2022 19:28:05: 23000000 INFO @ Tue, 02 Aug 2022 19:28:10: 29000000 INFO @ Tue, 02 Aug 2022 19:28:14: 27000000 INFO @ Tue, 02 Aug 2022 19:28:17: 24000000 INFO @ Tue, 02 Aug 2022 19:28:21: 30000000 INFO @ Tue, 02 Aug 2022 19:28:28: 28000000 INFO @ Tue, 02 Aug 2022 19:28:29: 25000000 INFO @ Tue, 02 Aug 2022 19:28:33: 31000000 INFO @ Tue, 02 Aug 2022 19:28:40: 26000000 INFO @ Tue, 02 Aug 2022 19:28:41: 29000000 INFO @ Tue, 02 Aug 2022 19:28:45: 32000000 INFO @ Tue, 02 Aug 2022 19:28:52: 27000000 INFO @ Tue, 02 Aug 2022 19:28:55: 30000000 INFO @ Tue, 02 Aug 2022 19:28:57: 33000000 INFO @ Tue, 02 Aug 2022 19:29:03: 28000000 INFO @ Tue, 02 Aug 2022 19:29:08: 34000000 INFO @ Tue, 02 Aug 2022 19:29:08: 31000000 INFO @ Tue, 02 Aug 2022 19:29:15: 29000000 INFO @ Tue, 02 Aug 2022 19:29:19: 35000000 INFO @ Tue, 02 Aug 2022 19:29:20: 32000000 INFO @ Tue, 02 Aug 2022 19:29:27: 30000000 INFO @ Tue, 02 Aug 2022 19:29:30: 36000000 INFO @ Tue, 02 Aug 2022 19:29:33: 33000000 INFO @ Tue, 02 Aug 2022 19:29:39: 31000000 INFO @ Tue, 02 Aug 2022 19:29:42: 37000000 INFO @ Tue, 02 Aug 2022 19:29:46: 34000000 INFO @ Tue, 02 Aug 2022 19:29:51: 32000000 INFO @ Tue, 02 Aug 2022 19:29:53: 38000000 INFO @ Tue, 02 Aug 2022 19:29:59: 35000000 INFO @ Tue, 02 Aug 2022 19:30:03: 33000000 INFO @ Tue, 02 Aug 2022 19:30:05: 39000000 INFO @ Tue, 02 Aug 2022 19:30:12: 36000000 INFO @ Tue, 02 Aug 2022 19:30:16: 34000000 INFO @ Tue, 02 Aug 2022 19:30:17: 40000000 INFO @ Tue, 02 Aug 2022 19:30:25: 37000000 INFO @ Tue, 02 Aug 2022 19:30:28: 35000000 INFO @ Tue, 02 Aug 2022 19:30:29: 41000000 INFO @ Tue, 02 Aug 2022 19:30:38: 38000000 INFO @ Tue, 02 Aug 2022 19:30:40: 36000000 INFO @ Tue, 02 Aug 2022 19:30:41: 42000000 INFO @ Tue, 02 Aug 2022 19:30:51: 39000000 INFO @ Tue, 02 Aug 2022 19:30:53: 43000000 INFO @ Tue, 02 Aug 2022 19:30:53: 37000000 INFO @ Tue, 02 Aug 2022 19:31:04: 40000000 INFO @ Tue, 02 Aug 2022 19:31:05: 44000000 INFO @ Tue, 02 Aug 2022 19:31:05: 38000000 INFO @ Tue, 02 Aug 2022 19:31:17: 45000000 INFO @ Tue, 02 Aug 2022 19:31:17: 41000000 INFO @ Tue, 02 Aug 2022 19:31:17: 39000000 INFO @ Tue, 02 Aug 2022 19:31:29: 46000000 INFO @ Tue, 02 Aug 2022 19:31:30: 40000000 INFO @ Tue, 02 Aug 2022 19:31:30: 42000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 19:31:40: 47000000 INFO @ Tue, 02 Aug 2022 19:31:42: 41000000 INFO @ Tue, 02 Aug 2022 19:31:42: 43000000 INFO @ Tue, 02 Aug 2022 19:31:51: 48000000 INFO @ Tue, 02 Aug 2022 19:31:53: 44000000 INFO @ Tue, 02 Aug 2022 19:31:54: 42000000 INFO @ Tue, 02 Aug 2022 19:32:01: 49000000 INFO @ Tue, 02 Aug 2022 19:32:05: 45000000 INFO @ Tue, 02 Aug 2022 19:32:06: 43000000 INFO @ Tue, 02 Aug 2022 19:32:12: 50000000 INFO @ Tue, 02 Aug 2022 19:32:17: 46000000 INFO @ Tue, 02 Aug 2022 19:32:18: 44000000 INFO @ Tue, 02 Aug 2022 19:32:23: 51000000 INFO @ Tue, 02 Aug 2022 19:32:29: 47000000 INFO @ Tue, 02 Aug 2022 19:32:31: 45000000 INFO @ Tue, 02 Aug 2022 19:32:34: 52000000 INFO @ Tue, 02 Aug 2022 19:32:41: 48000000 INFO @ Tue, 02 Aug 2022 19:32:43: 46000000 INFO @ Tue, 02 Aug 2022 19:32:44: 53000000 INFO @ Tue, 02 Aug 2022 19:32:52: 49000000 INFO @ Tue, 02 Aug 2022 19:32:54: 47000000 INFO @ Tue, 02 Aug 2022 19:32:55: 54000000 INFO @ Tue, 02 Aug 2022 19:33:04: 50000000 INFO @ Tue, 02 Aug 2022 19:33:06: 48000000 INFO @ Tue, 02 Aug 2022 19:33:06: 55000000 INFO @ Tue, 02 Aug 2022 19:33:16: 51000000 INFO @ Tue, 02 Aug 2022 19:33:17: 56000000 INFO @ Tue, 02 Aug 2022 19:33:17: 49000000 INFO @ Tue, 02 Aug 2022 19:33:27: 52000000 INFO @ Tue, 02 Aug 2022 19:33:29: 57000000 INFO @ Tue, 02 Aug 2022 19:33:29: 50000000 INFO @ Tue, 02 Aug 2022 19:33:39: 53000000 INFO @ Tue, 02 Aug 2022 19:33:40: 58000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 19:33:41: 51000000 INFO @ Tue, 02 Aug 2022 19:33:50: 54000000 INFO @ Tue, 02 Aug 2022 19:33:52: 59000000 INFO @ Tue, 02 Aug 2022 19:33:53: 52000000 INFO @ Tue, 02 Aug 2022 19:34:02: 55000000 INFO @ Tue, 02 Aug 2022 19:34:03: 60000000 INFO @ Tue, 02 Aug 2022 19:34:05: 53000000 INFO @ Tue, 02 Aug 2022 19:34:14: 56000000 INFO @ Tue, 02 Aug 2022 19:34:15: 61000000 INFO @ Tue, 02 Aug 2022 19:34:17: 54000000 INFO @ Tue, 02 Aug 2022 19:34:26: 62000000 INFO @ Tue, 02 Aug 2022 19:34:26: 57000000 INFO @ Tue, 02 Aug 2022 19:34:29: 55000000 INFO @ Tue, 02 Aug 2022 19:34:38: 63000000 INFO @ Tue, 02 Aug 2022 19:34:38: 58000000 INFO @ Tue, 02 Aug 2022 19:34:40: 56000000 INFO @ Tue, 02 Aug 2022 19:34:50: 64000000 INFO @ Tue, 02 Aug 2022 19:34:50: 59000000 INFO @ Tue, 02 Aug 2022 19:34:52: 57000000 INFO @ Tue, 02 Aug 2022 19:35:02: 65000000 INFO @ Tue, 02 Aug 2022 19:35:02: 60000000 INFO @ Tue, 02 Aug 2022 19:35:04: 58000000 INFO @ Tue, 02 Aug 2022 19:35:13: 66000000 INFO @ Tue, 02 Aug 2022 19:35:14: 61000000 INFO @ Tue, 02 Aug 2022 19:35:16: 59000000 INFO @ Tue, 02 Aug 2022 19:35:25: 67000000 INFO @ Tue, 02 Aug 2022 19:35:26: 62000000 INFO @ Tue, 02 Aug 2022 19:35:28: 60000000 INFO @ Tue, 02 Aug 2022 19:35:37: 68000000 INFO @ Tue, 02 Aug 2022 19:35:38: 63000000 INFO @ Tue, 02 Aug 2022 19:35:40: 61000000 INFO @ Tue, 02 Aug 2022 19:35:48: 69000000 INFO @ Tue, 02 Aug 2022 19:35:49: 64000000 INFO @ Tue, 02 Aug 2022 19:35:52: 62000000 INFO @ Tue, 02 Aug 2022 19:36:00: 70000000 INFO @ Tue, 02 Aug 2022 19:36:01: 65000000 INFO @ Tue, 02 Aug 2022 19:36:04: 63000000 INFO @ Tue, 02 Aug 2022 19:36:11: 71000000 INFO @ Tue, 02 Aug 2022 19:36:13: 66000000 INFO @ Tue, 02 Aug 2022 19:36:16: 64000000 INFO @ Tue, 02 Aug 2022 19:36:22: 72000000 INFO @ Tue, 02 Aug 2022 19:36:25: 67000000 INFO @ Tue, 02 Aug 2022 19:36:29: 65000000 INFO @ Tue, 02 Aug 2022 19:36:33: 73000000 INFO @ Tue, 02 Aug 2022 19:36:38: 68000000 INFO @ Tue, 02 Aug 2022 19:36:40: 66000000 INFO @ Tue, 02 Aug 2022 19:36:44: 74000000 INFO @ Tue, 02 Aug 2022 19:36:50: 69000000 INFO @ Tue, 02 Aug 2022 19:36:52: 67000000 INFO @ Tue, 02 Aug 2022 19:36:54: 75000000 INFO @ Tue, 02 Aug 2022 19:37:02: 70000000 INFO @ Tue, 02 Aug 2022 19:37:05: 68000000 INFO @ Tue, 02 Aug 2022 19:37:06: 76000000 INFO @ Tue, 02 Aug 2022 19:37:15: 71000000 INFO @ Tue, 02 Aug 2022 19:37:18: 77000000 INFO @ Tue, 02 Aug 2022 19:37:18: 69000000 INFO @ Tue, 02 Aug 2022 19:37:26: 72000000 INFO @ Tue, 02 Aug 2022 19:37:29: 78000000 INFO @ Tue, 02 Aug 2022 19:37:30: 70000000 INFO @ Tue, 02 Aug 2022 19:37:38: 73000000 INFO @ Tue, 02 Aug 2022 19:37:43: 79000000 INFO @ Tue, 02 Aug 2022 19:37:45: 71000000 INFO @ Tue, 02 Aug 2022 19:37:52: 74000000 INFO @ Tue, 02 Aug 2022 19:37:56: 80000000 INFO @ Tue, 02 Aug 2022 19:37:57: 72000000 INFO @ Tue, 02 Aug 2022 19:37:58: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:37:58: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:37:58: #1 total tags in treatment: 29400011 INFO @ Tue, 02 Aug 2022 19:37:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:37:58: #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 19:37:59: #1 tags after filtering in treatment: 17780071 INFO @ Tue, 02 Aug 2022 19:37:59: #1 Redundant rate of treatment: 0.40 INFO @ Tue, 02 Aug 2022 19:37:59: #1 finished! INFO @ Tue, 02 Aug 2022 19:37:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:37:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:38:01: #2 number of paired peaks: 871 WARNING @ Tue, 02 Aug 2022 19:38:01: Fewer paired peaks (871) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 871 pairs to build model! INFO @ Tue, 02 Aug 2022 19:38:01: start model_add_line... INFO @ Tue, 02 Aug 2022 19:38:01: start X-correlation... INFO @ Tue, 02 Aug 2022 19:38:01: end of X-cor INFO @ Tue, 02 Aug 2022 19:38:01: #2 finished! INFO @ Tue, 02 Aug 2022 19:38:01: #2 predicted fragment length is 57 bps INFO @ Tue, 02 Aug 2022 19:38:01: #2 alternative fragment length(s) may be 4,57 bps INFO @ Tue, 02 Aug 2022 19:38:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05_model.r WARNING @ Tue, 02 Aug 2022 19:38:01: #2 Since the d (57) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:38:01: #2 You may need to consider one of the other alternative d(s): 4,57 WARNING @ Tue, 02 Aug 2022 19:38:01: #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 19:38:01: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:38:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:38:04: 75000000 INFO @ Tue, 02 Aug 2022 19:38:09: 73000000 INFO @ Tue, 02 Aug 2022 19:38:15: 76000000 INFO @ Tue, 02 Aug 2022 19:38:21: 74000000 INFO @ Tue, 02 Aug 2022 19:38:27: 77000000 INFO @ Tue, 02 Aug 2022 19:38:33: 75000000 INFO @ Tue, 02 Aug 2022 19:38:38: 78000000 INFO @ Tue, 02 Aug 2022 19:38:45: 76000000 INFO @ Tue, 02 Aug 2022 19:38:49: 79000000 INFO @ Tue, 02 Aug 2022 19:38:53: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:38:57: 77000000 INFO @ Tue, 02 Aug 2022 19:39:01: 80000000 INFO @ Tue, 02 Aug 2022 19:39:04: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:39:04: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:39:04: #1 total tags in treatment: 29400011 INFO @ Tue, 02 Aug 2022 19:39:04: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:39:04: #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 19:39:05: #1 tags after filtering in treatment: 17780071 INFO @ Tue, 02 Aug 2022 19:39:05: #1 Redundant rate of treatment: 0.40 INFO @ Tue, 02 Aug 2022 19:39:05: #1 finished! INFO @ Tue, 02 Aug 2022 19:39:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:39:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:39:07: #2 number of paired peaks: 871 WARNING @ Tue, 02 Aug 2022 19:39:07: Fewer paired peaks (871) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 871 pairs to build model! INFO @ Tue, 02 Aug 2022 19:39:07: start model_add_line... INFO @ Tue, 02 Aug 2022 19:39:07: start X-correlation... INFO @ Tue, 02 Aug 2022 19:39:07: end of X-cor INFO @ Tue, 02 Aug 2022 19:39:07: #2 finished! INFO @ Tue, 02 Aug 2022 19:39:07: #2 predicted fragment length is 57 bps INFO @ Tue, 02 Aug 2022 19:39:07: #2 alternative fragment length(s) may be 4,57 bps INFO @ Tue, 02 Aug 2022 19:39:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10_model.r WARNING @ Tue, 02 Aug 2022 19:39:07: #2 Since the d (57) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:39:07: #2 You may need to consider one of the other alternative d(s): 4,57 WARNING @ Tue, 02 Aug 2022 19:39:07: #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 19:39:07: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:39:07: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:39:09: 78000000 INFO @ Tue, 02 Aug 2022 19:39:21: 79000000 INFO @ Tue, 02 Aug 2022 19:39:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05_peaks.xls INFO @ Tue, 02 Aug 2022 19:39:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:39:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.05_summits.bed INFO @ Tue, 02 Aug 2022 19:39:23: Done! pass1 - making usageList (15 chroms): 11 millis pass2 - checking and writing primary data (22093 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:39:33: 80000000 INFO @ Tue, 02 Aug 2022 19:39:35: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:39:35: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:39:35: #1 total tags in treatment: 29400011 INFO @ Tue, 02 Aug 2022 19:39:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:39:35: #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 19:39:36: #1 tags after filtering in treatment: 17780071 INFO @ Tue, 02 Aug 2022 19:39:36: #1 Redundant rate of treatment: 0.40 INFO @ Tue, 02 Aug 2022 19:39:36: #1 finished! INFO @ Tue, 02 Aug 2022 19:39:36: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:39:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:39:38: #2 number of paired peaks: 871 WARNING @ Tue, 02 Aug 2022 19:39:38: Fewer paired peaks (871) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 871 pairs to build model! INFO @ Tue, 02 Aug 2022 19:39:38: start model_add_line... INFO @ Tue, 02 Aug 2022 19:39:38: start X-correlation... INFO @ Tue, 02 Aug 2022 19:39:38: end of X-cor INFO @ Tue, 02 Aug 2022 19:39:38: #2 finished! INFO @ Tue, 02 Aug 2022 19:39:38: #2 predicted fragment length is 57 bps INFO @ Tue, 02 Aug 2022 19:39:38: #2 alternative fragment length(s) may be 4,57 bps INFO @ Tue, 02 Aug 2022 19:39:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20_model.r WARNING @ Tue, 02 Aug 2022 19:39:38: #2 Since the d (57) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:39:38: #2 You may need to consider one of the other alternative d(s): 4,57 WARNING @ Tue, 02 Aug 2022 19:39:38: #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 19:39:38: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:39:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:39:58: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:40:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10_peaks.xls INFO @ Tue, 02 Aug 2022 19:40:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:40:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.10_summits.bed INFO @ Tue, 02 Aug 2022 19:40:26: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (10429 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:40:29: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:40:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20_peaks.xls INFO @ Tue, 02 Aug 2022 19:40:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:40:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178806/SRX12178806.20_summits.bed INFO @ Tue, 02 Aug 2022 19:40:59: Done! pass1 - making usageList (12 chroms): 2 millis pass2 - checking and writing primary data (1109 records, 4 fields): 4 millis CompletedMACS2peakCalling