Job ID = 16436250 SRX = SRX12178881 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:11:22 prefetch.2.10.7: 1) Downloading 'SRR15888033'... 2022-08-02T02:11:22 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:14:53 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:14:53 prefetch.2.10.7: 1) 'SRR15888033' was downloaded successfully 2022-08-02T02:14:53 prefetch.2.10.7: 'SRR15888033' has 0 unresolved dependencies Read 60575611 spots for SRR15888033/SRR15888033.sra Written 60575611 spots for SRR15888033/SRR15888033.sra fastq に変換しました。 bowtie でマッピング中... Your job 16437062 ("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: 00:47:41 60575611 reads; of these: 60575611 (100.00%) were paired; of these: 18388166 (30.36%) aligned concordantly 0 times 36134081 (59.65%) aligned concordantly exactly 1 time 6053364 (9.99%) aligned concordantly >1 times ---- 18388166 pairs aligned concordantly 0 times; of these: 5980970 (32.53%) aligned discordantly 1 time ---- 12407196 pairs aligned 0 times concordantly or discordantly; of these: 24814392 mates make up the pairs; of these: 18282851 (73.68%) aligned 0 times 4855669 (19.57%) aligned exactly 1 time 1675872 (6.75%) aligned >1 times 84.91% overall alignment rate Time searching: 00:47:41 Overall time: 00:47:41 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 44 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] 11865143 / 47958570 = 0.2474 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 12:31:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.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 12:31:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:31:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:31:29: 1000000 INFO @ Tue, 02 Aug 2022 12:31:34: 2000000 INFO @ Tue, 02 Aug 2022 12:31:38: 3000000 INFO @ Tue, 02 Aug 2022 12:31:43: 4000000 INFO @ Tue, 02 Aug 2022 12:31:48: 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 12:31:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.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 12:31:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:31:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:31:53: 6000000 INFO @ Tue, 02 Aug 2022 12:31:59: 1000000 INFO @ Tue, 02 Aug 2022 12:31:59: 7000000 INFO @ Tue, 02 Aug 2022 12:32:05: 8000000 INFO @ Tue, 02 Aug 2022 12:32:05: 2000000 INFO @ Tue, 02 Aug 2022 12:32:11: 9000000 INFO @ Tue, 02 Aug 2022 12:32:12: 3000000 INFO @ Tue, 02 Aug 2022 12:32:16: 10000000 INFO @ Tue, 02 Aug 2022 12:32:18: 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 12:32:22: 11000000 INFO @ Tue, 02 Aug 2022 12:32:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.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 12:32:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:32:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:32:25: 5000000 INFO @ Tue, 02 Aug 2022 12:32:28: 12000000 INFO @ Tue, 02 Aug 2022 12:32:29: 1000000 INFO @ Tue, 02 Aug 2022 12:32:31: 6000000 INFO @ Tue, 02 Aug 2022 12:32:34: 13000000 INFO @ Tue, 02 Aug 2022 12:32:35: 2000000 INFO @ Tue, 02 Aug 2022 12:32:38: 7000000 INFO @ Tue, 02 Aug 2022 12:32:40: 14000000 INFO @ Tue, 02 Aug 2022 12:32:41: 3000000 INFO @ Tue, 02 Aug 2022 12:32:44: 8000000 INFO @ Tue, 02 Aug 2022 12:32:46: 15000000 INFO @ Tue, 02 Aug 2022 12:32:46: 4000000 INFO @ Tue, 02 Aug 2022 12:32:51: 9000000 INFO @ Tue, 02 Aug 2022 12:32:52: 16000000 INFO @ Tue, 02 Aug 2022 12:32:52: 5000000 INFO @ Tue, 02 Aug 2022 12:32:57: 10000000 INFO @ Tue, 02 Aug 2022 12:32:58: 17000000 INFO @ Tue, 02 Aug 2022 12:32:58: 6000000 INFO @ Tue, 02 Aug 2022 12:33:04: 11000000 INFO @ Tue, 02 Aug 2022 12:33:05: 18000000 INFO @ Tue, 02 Aug 2022 12:33:05: 7000000 INFO @ Tue, 02 Aug 2022 12:33:11: 12000000 INFO @ Tue, 02 Aug 2022 12:33:11: 19000000 INFO @ Tue, 02 Aug 2022 12:33:11: 8000000 INFO @ Tue, 02 Aug 2022 12:33:18: 20000000 INFO @ Tue, 02 Aug 2022 12:33:18: 13000000 INFO @ Tue, 02 Aug 2022 12:33:18: 9000000 INFO @ Tue, 02 Aug 2022 12:33:25: 21000000 INFO @ Tue, 02 Aug 2022 12:33:25: 14000000 INFO @ Tue, 02 Aug 2022 12:33:26: 10000000 INFO @ Tue, 02 Aug 2022 12:33:31: 22000000 INFO @ Tue, 02 Aug 2022 12:33:31: 15000000 INFO @ Tue, 02 Aug 2022 12:33:32: 11000000 INFO @ Tue, 02 Aug 2022 12:33:37: 23000000 INFO @ Tue, 02 Aug 2022 12:33:37: 16000000 INFO @ Tue, 02 Aug 2022 12:33:38: 12000000 INFO @ Tue, 02 Aug 2022 12:33:43: 24000000 INFO @ Tue, 02 Aug 2022 12:33:44: 17000000 INFO @ Tue, 02 Aug 2022 12:33:44: 13000000 INFO @ Tue, 02 Aug 2022 12:33:50: 25000000 INFO @ Tue, 02 Aug 2022 12:33:50: 18000000 INFO @ Tue, 02 Aug 2022 12:33:51: 14000000 INFO @ Tue, 02 Aug 2022 12:33:56: 26000000 INFO @ Tue, 02 Aug 2022 12:33:56: 19000000 INFO @ Tue, 02 Aug 2022 12:33:57: 15000000 INFO @ Tue, 02 Aug 2022 12:34:02: 27000000 INFO @ Tue, 02 Aug 2022 12:34:02: 20000000 INFO @ Tue, 02 Aug 2022 12:34:03: 16000000 INFO @ Tue, 02 Aug 2022 12:34:08: 28000000 INFO @ Tue, 02 Aug 2022 12:34:08: 21000000 INFO @ Tue, 02 Aug 2022 12:34:09: 17000000 INFO @ Tue, 02 Aug 2022 12:34:14: 29000000 INFO @ Tue, 02 Aug 2022 12:34:15: 22000000 INFO @ Tue, 02 Aug 2022 12:34:15: 18000000 INFO @ Tue, 02 Aug 2022 12:34:20: 30000000 INFO @ Tue, 02 Aug 2022 12:34:21: 23000000 INFO @ Tue, 02 Aug 2022 12:34:21: 19000000 INFO @ Tue, 02 Aug 2022 12:34:26: 31000000 INFO @ Tue, 02 Aug 2022 12:34:27: 24000000 INFO @ Tue, 02 Aug 2022 12:34:27: 20000000 INFO @ Tue, 02 Aug 2022 12:34:32: 32000000 INFO @ Tue, 02 Aug 2022 12:34:33: 25000000 INFO @ Tue, 02 Aug 2022 12:34:33: 21000000 INFO @ Tue, 02 Aug 2022 12:34:39: 33000000 INFO @ Tue, 02 Aug 2022 12:34:39: 26000000 INFO @ Tue, 02 Aug 2022 12:34:40: 22000000 INFO @ Tue, 02 Aug 2022 12:34:45: 34000000 INFO @ Tue, 02 Aug 2022 12:34:45: 27000000 INFO @ Tue, 02 Aug 2022 12:34:46: 23000000 INFO @ Tue, 02 Aug 2022 12:34:51: 35000000 INFO @ Tue, 02 Aug 2022 12:34:52: 28000000 INFO @ Tue, 02 Aug 2022 12:34:52: 24000000 INFO @ Tue, 02 Aug 2022 12:34:57: 36000000 INFO @ Tue, 02 Aug 2022 12:34:58: 29000000 INFO @ Tue, 02 Aug 2022 12:34:58: 25000000 INFO @ Tue, 02 Aug 2022 12:35:03: 37000000 INFO @ Tue, 02 Aug 2022 12:35:04: 30000000 INFO @ Tue, 02 Aug 2022 12:35:04: 26000000 INFO @ Tue, 02 Aug 2022 12:35:09: 38000000 INFO @ Tue, 02 Aug 2022 12:35:10: 31000000 INFO @ Tue, 02 Aug 2022 12:35:10: 27000000 INFO @ Tue, 02 Aug 2022 12:35:15: 39000000 INFO @ Tue, 02 Aug 2022 12:35:16: 32000000 INFO @ Tue, 02 Aug 2022 12:35:16: 28000000 INFO @ Tue, 02 Aug 2022 12:35:21: 40000000 INFO @ Tue, 02 Aug 2022 12:35:22: 33000000 INFO @ Tue, 02 Aug 2022 12:35:22: 29000000 INFO @ Tue, 02 Aug 2022 12:35:27: 41000000 INFO @ Tue, 02 Aug 2022 12:35:28: 34000000 INFO @ Tue, 02 Aug 2022 12:35:29: 30000000 INFO @ Tue, 02 Aug 2022 12:35:34: 42000000 INFO @ Tue, 02 Aug 2022 12:35:34: 35000000 INFO @ Tue, 02 Aug 2022 12:35:35: 31000000 INFO @ Tue, 02 Aug 2022 12:35:40: 43000000 INFO @ Tue, 02 Aug 2022 12:35:41: 36000000 INFO @ Tue, 02 Aug 2022 12:35:41: 32000000 INFO @ Tue, 02 Aug 2022 12:35:46: 44000000 INFO @ Tue, 02 Aug 2022 12:35:47: 37000000 INFO @ Tue, 02 Aug 2022 12:35:47: 33000000 INFO @ Tue, 02 Aug 2022 12:35:53: 45000000 INFO @ Tue, 02 Aug 2022 12:35:53: 38000000 INFO @ Tue, 02 Aug 2022 12:35:54: 34000000 INFO @ Tue, 02 Aug 2022 12:35:59: 46000000 INFO @ Tue, 02 Aug 2022 12:36:00: 39000000 INFO @ Tue, 02 Aug 2022 12:36:00: 35000000 INFO @ Tue, 02 Aug 2022 12:36:06: 47000000 INFO @ Tue, 02 Aug 2022 12:36:06: 40000000 INFO @ Tue, 02 Aug 2022 12:36:07: 36000000 INFO @ Tue, 02 Aug 2022 12:36:12: 48000000 INFO @ Tue, 02 Aug 2022 12:36:13: 41000000 INFO @ Tue, 02 Aug 2022 12:36:13: 37000000 INFO @ Tue, 02 Aug 2022 12:36:18: 49000000 INFO @ Tue, 02 Aug 2022 12:36:20: 38000000 INFO @ Tue, 02 Aug 2022 12:36:20: 42000000 INFO @ Tue, 02 Aug 2022 12:36:25: 50000000 INFO @ Tue, 02 Aug 2022 12:36:26: 39000000 INFO @ Tue, 02 Aug 2022 12:36:26: 43000000 INFO @ Tue, 02 Aug 2022 12:36:31: 51000000 INFO @ Tue, 02 Aug 2022 12:36:32: 40000000 INFO @ Tue, 02 Aug 2022 12:36:32: 44000000 INFO @ Tue, 02 Aug 2022 12:36:38: 52000000 INFO @ Tue, 02 Aug 2022 12:36:38: 41000000 INFO @ Tue, 02 Aug 2022 12:36:39: 45000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:36:44: 53000000 INFO @ Tue, 02 Aug 2022 12:36:44: 42000000 INFO @ Tue, 02 Aug 2022 12:36:45: 46000000 INFO @ Tue, 02 Aug 2022 12:36:50: 43000000 INFO @ Tue, 02 Aug 2022 12:36:50: 54000000 INFO @ Tue, 02 Aug 2022 12:36:51: 47000000 INFO @ Tue, 02 Aug 2022 12:36:56: 44000000 INFO @ Tue, 02 Aug 2022 12:36:56: 55000000 INFO @ Tue, 02 Aug 2022 12:36:57: 48000000 INFO @ Tue, 02 Aug 2022 12:37:02: 45000000 INFO @ Tue, 02 Aug 2022 12:37:03: 56000000 INFO @ Tue, 02 Aug 2022 12:37:04: 49000000 INFO @ Tue, 02 Aug 2022 12:37:08: 46000000 INFO @ Tue, 02 Aug 2022 12:37:09: 57000000 INFO @ Tue, 02 Aug 2022 12:37:10: 50000000 INFO @ Tue, 02 Aug 2022 12:37:14: 47000000 INFO @ Tue, 02 Aug 2022 12:37:16: 58000000 INFO @ Tue, 02 Aug 2022 12:37:16: 51000000 INFO @ Tue, 02 Aug 2022 12:37:20: 48000000 INFO @ Tue, 02 Aug 2022 12:37:22: 59000000 INFO @ Tue, 02 Aug 2022 12:37:23: 52000000 INFO @ Tue, 02 Aug 2022 12:37:26: 49000000 INFO @ Tue, 02 Aug 2022 12:37:29: 60000000 INFO @ Tue, 02 Aug 2022 12:37:30: 53000000 INFO @ Tue, 02 Aug 2022 12:37:33: 50000000 INFO @ Tue, 02 Aug 2022 12:37:35: 61000000 INFO @ Tue, 02 Aug 2022 12:37:36: 54000000 INFO @ Tue, 02 Aug 2022 12:37:39: 51000000 INFO @ Tue, 02 Aug 2022 12:37:42: 62000000 INFO @ Tue, 02 Aug 2022 12:37:42: 55000000 INFO @ Tue, 02 Aug 2022 12:37:45: 52000000 INFO @ Tue, 02 Aug 2022 12:37:49: 63000000 INFO @ Tue, 02 Aug 2022 12:37:49: 56000000 INFO @ Tue, 02 Aug 2022 12:37:51: 53000000 INFO @ Tue, 02 Aug 2022 12:37:55: 57000000 INFO @ Tue, 02 Aug 2022 12:37:55: 64000000 INFO @ Tue, 02 Aug 2022 12:37:57: 54000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:38:01: 58000000 INFO @ Tue, 02 Aug 2022 12:38:02: 65000000 INFO @ Tue, 02 Aug 2022 12:38:03: 55000000 INFO @ Tue, 02 Aug 2022 12:38:08: 59000000 INFO @ Tue, 02 Aug 2022 12:38:09: 66000000 INFO @ Tue, 02 Aug 2022 12:38:09: 56000000 INFO @ Tue, 02 Aug 2022 12:38:14: 60000000 INFO @ Tue, 02 Aug 2022 12:38:15: 57000000 INFO @ Tue, 02 Aug 2022 12:38:16: 67000000 INFO @ Tue, 02 Aug 2022 12:38:20: 61000000 INFO @ Tue, 02 Aug 2022 12:38:21: 58000000 INFO @ Tue, 02 Aug 2022 12:38:22: 68000000 INFO @ Tue, 02 Aug 2022 12:38:27: 62000000 INFO @ Tue, 02 Aug 2022 12:38:27: 59000000 INFO @ Tue, 02 Aug 2022 12:38:29: 69000000 INFO @ Tue, 02 Aug 2022 12:38:33: 63000000 INFO @ Tue, 02 Aug 2022 12:38:33: 60000000 INFO @ Tue, 02 Aug 2022 12:38:35: 70000000 INFO @ Tue, 02 Aug 2022 12:38:39: 61000000 INFO @ Tue, 02 Aug 2022 12:38:39: 64000000 INFO @ Tue, 02 Aug 2022 12:38:42: 71000000 INFO @ Tue, 02 Aug 2022 12:38:45: 62000000 INFO @ Tue, 02 Aug 2022 12:38:46: 65000000 INFO @ Tue, 02 Aug 2022 12:38:49: 72000000 INFO @ Tue, 02 Aug 2022 12:38:52: 63000000 INFO @ Tue, 02 Aug 2022 12:38:52: 66000000 INFO @ Tue, 02 Aug 2022 12:38:55: 73000000 INFO @ Tue, 02 Aug 2022 12:38:58: 64000000 INFO @ Tue, 02 Aug 2022 12:38:58: 67000000 INFO @ Tue, 02 Aug 2022 12:39:02: 74000000 INFO @ Tue, 02 Aug 2022 12:39:04: 65000000 INFO @ Tue, 02 Aug 2022 12:39:04: 68000000 INFO @ Tue, 02 Aug 2022 12:39:08: 75000000 INFO @ Tue, 02 Aug 2022 12:39:10: 66000000 INFO @ Tue, 02 Aug 2022 12:39:11: 69000000 INFO @ Tue, 02 Aug 2022 12:39:15: 76000000 INFO @ Tue, 02 Aug 2022 12:39:17: 70000000 INFO @ Tue, 02 Aug 2022 12:39:17: 67000000 INFO @ Tue, 02 Aug 2022 12:39:22: 77000000 INFO @ Tue, 02 Aug 2022 12:39:23: 71000000 INFO @ Tue, 02 Aug 2022 12:39:23: 68000000 INFO @ Tue, 02 Aug 2022 12:39:28: 78000000 INFO @ Tue, 02 Aug 2022 12:39:29: 72000000 INFO @ Tue, 02 Aug 2022 12:39:29: 69000000 INFO @ Tue, 02 Aug 2022 12:39:35: 73000000 INFO @ Tue, 02 Aug 2022 12:39:35: 79000000 INFO @ Tue, 02 Aug 2022 12:39:35: 70000000 INFO @ Tue, 02 Aug 2022 12:39:36: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:39:36: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:39:36: #1 total tags in treatment: 31280642 INFO @ Tue, 02 Aug 2022 12:39:36: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:39:36: #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 12:39:37: #1 tags after filtering in treatment: 19538948 INFO @ Tue, 02 Aug 2022 12:39:37: #1 Redundant rate of treatment: 0.38 INFO @ Tue, 02 Aug 2022 12:39:37: #1 finished! INFO @ Tue, 02 Aug 2022 12:39:37: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:39:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:39:38: #2 number of paired peaks: 493 WARNING @ Tue, 02 Aug 2022 12:39:38: Fewer paired peaks (493) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 493 pairs to build model! INFO @ Tue, 02 Aug 2022 12:39:38: start model_add_line... INFO @ Tue, 02 Aug 2022 12:39:38: start X-correlation... INFO @ Tue, 02 Aug 2022 12:39:38: end of X-cor INFO @ Tue, 02 Aug 2022 12:39:38: #2 finished! INFO @ Tue, 02 Aug 2022 12:39:38: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 12:39:38: #2 alternative fragment length(s) may be 4,22,41,49,53 bps INFO @ Tue, 02 Aug 2022 12:39:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05_model.r WARNING @ Tue, 02 Aug 2022 12:39:38: #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, 02 Aug 2022 12:39:38: #2 You may need to consider one of the other alternative d(s): 4,22,41,49,53 WARNING @ Tue, 02 Aug 2022 12:39:38: #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 12:39:38: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:39:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:39:41: 74000000 INFO @ Tue, 02 Aug 2022 12:39:41: 71000000 INFO @ Tue, 02 Aug 2022 12:39:47: 75000000 INFO @ Tue, 02 Aug 2022 12:39:48: 72000000 INFO @ Tue, 02 Aug 2022 12:39:53: 76000000 INFO @ Tue, 02 Aug 2022 12:39:54: 73000000 INFO @ Tue, 02 Aug 2022 12:39:59: 77000000 INFO @ Tue, 02 Aug 2022 12:40:00: 74000000 INFO @ Tue, 02 Aug 2022 12:40:05: 78000000 INFO @ Tue, 02 Aug 2022 12:40:06: 75000000 INFO @ Tue, 02 Aug 2022 12:40:11: 79000000 INFO @ Tue, 02 Aug 2022 12:40:12: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:40:12: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:40:12: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:40:12: #1 total tags in treatment: 31280642 INFO @ Tue, 02 Aug 2022 12:40:12: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:40:12: #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 12:40:13: 76000000 INFO @ Tue, 02 Aug 2022 12:40:13: #1 tags after filtering in treatment: 19538948 INFO @ Tue, 02 Aug 2022 12:40:13: #1 Redundant rate of treatment: 0.38 INFO @ Tue, 02 Aug 2022 12:40:13: #1 finished! INFO @ Tue, 02 Aug 2022 12:40:13: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:40:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:40:14: #2 number of paired peaks: 493 WARNING @ Tue, 02 Aug 2022 12:40:14: Fewer paired peaks (493) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 493 pairs to build model! INFO @ Tue, 02 Aug 2022 12:40:14: start model_add_line... INFO @ Tue, 02 Aug 2022 12:40:15: start X-correlation... INFO @ Tue, 02 Aug 2022 12:40:15: end of X-cor INFO @ Tue, 02 Aug 2022 12:40:15: #2 finished! INFO @ Tue, 02 Aug 2022 12:40:15: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 12:40:15: #2 alternative fragment length(s) may be 4,22,41,49,53 bps INFO @ Tue, 02 Aug 2022 12:40:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10_model.r WARNING @ Tue, 02 Aug 2022 12:40:15: #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, 02 Aug 2022 12:40:15: #2 You may need to consider one of the other alternative d(s): 4,22,41,49,53 WARNING @ Tue, 02 Aug 2022 12:40:15: #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 12:40:15: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:40:15: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:40:18: 77000000 INFO @ Tue, 02 Aug 2022 12:40:24: 78000000 INFO @ Tue, 02 Aug 2022 12:40:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:40:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:40:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.05_summits.bed INFO @ Tue, 02 Aug 2022 12:40:30: 79000000 INFO @ Tue, 02 Aug 2022 12:40:30: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (20890 records, 4 fields): 40 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:40:31: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:40:31: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:40:31: #1 total tags in treatment: 31280642 INFO @ Tue, 02 Aug 2022 12:40:31: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:40:31: #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 12:40:32: #1 tags after filtering in treatment: 19538948 INFO @ Tue, 02 Aug 2022 12:40:32: #1 Redundant rate of treatment: 0.38 INFO @ Tue, 02 Aug 2022 12:40:32: #1 finished! INFO @ Tue, 02 Aug 2022 12:40:32: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:40:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:40:33: #2 number of paired peaks: 493 WARNING @ Tue, 02 Aug 2022 12:40:33: Fewer paired peaks (493) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 493 pairs to build model! INFO @ Tue, 02 Aug 2022 12:40:33: start model_add_line... INFO @ Tue, 02 Aug 2022 12:40:33: start X-correlation... INFO @ Tue, 02 Aug 2022 12:40:33: end of X-cor INFO @ Tue, 02 Aug 2022 12:40:33: #2 finished! INFO @ Tue, 02 Aug 2022 12:40:33: #2 predicted fragment length is 53 bps INFO @ Tue, 02 Aug 2022 12:40:33: #2 alternative fragment length(s) may be 4,22,41,49,53 bps INFO @ Tue, 02 Aug 2022 12:40:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20_model.r WARNING @ Tue, 02 Aug 2022 12:40:33: #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, 02 Aug 2022 12:40:33: #2 You may need to consider one of the other alternative d(s): 4,22,41,49,53 WARNING @ Tue, 02 Aug 2022 12:40:33: #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 12:40:33: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:40:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:40:49: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:41:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:41:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:41:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.10_summits.bed INFO @ Tue, 02 Aug 2022 12:41:06: Done! pass1 - making usageList (13 chroms): 2 millis pass2 - checking and writing primary data (10322 records, 4 fields): 90 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:41:08: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:41:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:41:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:41:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178881/SRX12178881.20_summits.bed INFO @ Tue, 02 Aug 2022 12:41:25: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (1460 records, 4 fields): 73 millis CompletedMACS2peakCalling