Job ID = 16440162 SRX = SRX12178834 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T08:24:25 prefetch.2.10.7: 1) Downloading 'SRR15888080'... 2022-08-02T08:24:25 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T08:26:28 prefetch.2.10.7: HTTPS download succeed 2022-08-02T08:26:28 prefetch.2.10.7: 1) 'SRR15888080' was downloaded successfully 2022-08-02T08:26:28 prefetch.2.10.7: 'SRR15888080' has 0 unresolved dependencies Read 41990922 spots for SRR15888080/SRR15888080.sra Written 41990922 spots for SRR15888080/SRR15888080.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441108 ("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: 01:01:31 41990922 reads; of these: 41990922 (100.00%) were paired; of these: 11845300 (28.21%) aligned concordantly 0 times 24770218 (58.99%) aligned concordantly exactly 1 time 5375404 (12.80%) aligned concordantly >1 times ---- 11845300 pairs aligned concordantly 0 times; of these: 5120089 (43.22%) aligned discordantly 1 time ---- 6725211 pairs aligned 0 times concordantly or discordantly; of these: 13450422 mates make up the pairs; of these: 7312074 (54.36%) aligned 0 times 4389398 (32.63%) aligned exactly 1 time 1748950 (13.00%) aligned >1 times 91.29% overall alignment rate Time searching: 01:01:31 Overall time: 01:01:31 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 32 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] 6121781 / 35139977 = 0.1742 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 19:00:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.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 19:00:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:00:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:00:26: 1000000 INFO @ Tue, 02 Aug 2022 19:00:35: 2000000 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 19:00:45: 3000000 INFO @ Tue, 02 Aug 2022 19:00:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.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 19:00:46: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:00:46: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:00:54: 4000000 INFO @ Tue, 02 Aug 2022 19:00:55: 1000000 INFO @ Tue, 02 Aug 2022 19:01:03: 5000000 INFO @ Tue, 02 Aug 2022 19:01:05: 2000000 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 19:01:13: 6000000 INFO @ Tue, 02 Aug 2022 19:01:14: 3000000 INFO @ Tue, 02 Aug 2022 19:01:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.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 19:01:15: #1 read tag files... INFO @ Tue, 02 Aug 2022 19:01:15: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 19:01:24: 7000000 INFO @ Tue, 02 Aug 2022 19:01:25: 1000000 INFO @ Tue, 02 Aug 2022 19:01:25: 4000000 INFO @ Tue, 02 Aug 2022 19:01:34: 8000000 INFO @ Tue, 02 Aug 2022 19:01:34: 2000000 INFO @ Tue, 02 Aug 2022 19:01:35: 5000000 INFO @ Tue, 02 Aug 2022 19:01:43: 3000000 INFO @ Tue, 02 Aug 2022 19:01:44: 9000000 INFO @ Tue, 02 Aug 2022 19:01:45: 6000000 INFO @ Tue, 02 Aug 2022 19:01:53: 4000000 INFO @ Tue, 02 Aug 2022 19:01:54: 10000000 INFO @ Tue, 02 Aug 2022 19:01:55: 7000000 INFO @ Tue, 02 Aug 2022 19:02:02: 5000000 INFO @ Tue, 02 Aug 2022 19:02:04: 11000000 INFO @ Tue, 02 Aug 2022 19:02:04: 8000000 INFO @ Tue, 02 Aug 2022 19:02:11: 6000000 INFO @ Tue, 02 Aug 2022 19:02:14: 9000000 INFO @ Tue, 02 Aug 2022 19:02:14: 12000000 INFO @ Tue, 02 Aug 2022 19:02:20: 7000000 INFO @ Tue, 02 Aug 2022 19:02:25: 10000000 INFO @ Tue, 02 Aug 2022 19:02:25: 13000000 INFO @ Tue, 02 Aug 2022 19:02:29: 8000000 INFO @ Tue, 02 Aug 2022 19:02:35: 14000000 INFO @ Tue, 02 Aug 2022 19:02:35: 11000000 INFO @ Tue, 02 Aug 2022 19:02:38: 9000000 INFO @ Tue, 02 Aug 2022 19:02:44: 15000000 INFO @ Tue, 02 Aug 2022 19:02:45: 12000000 INFO @ Tue, 02 Aug 2022 19:02:47: 10000000 INFO @ Tue, 02 Aug 2022 19:02:54: 16000000 INFO @ Tue, 02 Aug 2022 19:02:54: 13000000 INFO @ Tue, 02 Aug 2022 19:02:55: 11000000 INFO @ Tue, 02 Aug 2022 19:03:04: 14000000 INFO @ Tue, 02 Aug 2022 19:03:04: 17000000 INFO @ Tue, 02 Aug 2022 19:03:04: 12000000 INFO @ Tue, 02 Aug 2022 19:03:13: 15000000 INFO @ Tue, 02 Aug 2022 19:03:13: 13000000 INFO @ Tue, 02 Aug 2022 19:03:14: 18000000 INFO @ Tue, 02 Aug 2022 19:03:22: 14000000 INFO @ Tue, 02 Aug 2022 19:03:23: 16000000 INFO @ Tue, 02 Aug 2022 19:03:24: 19000000 INFO @ Tue, 02 Aug 2022 19:03:31: 15000000 INFO @ Tue, 02 Aug 2022 19:03:32: 17000000 INFO @ Tue, 02 Aug 2022 19:03:34: 20000000 INFO @ Tue, 02 Aug 2022 19:03:40: 16000000 INFO @ Tue, 02 Aug 2022 19:03:42: 18000000 INFO @ Tue, 02 Aug 2022 19:03:43: 21000000 INFO @ Tue, 02 Aug 2022 19:03:50: 17000000 INFO @ Tue, 02 Aug 2022 19:03:52: 19000000 INFO @ Tue, 02 Aug 2022 19:03:53: 22000000 INFO @ Tue, 02 Aug 2022 19:03:59: 18000000 INFO @ Tue, 02 Aug 2022 19:04:02: 20000000 INFO @ Tue, 02 Aug 2022 19:04:02: 23000000 INFO @ Tue, 02 Aug 2022 19:04:08: 19000000 INFO @ Tue, 02 Aug 2022 19:04:12: 24000000 INFO @ Tue, 02 Aug 2022 19:04:12: 21000000 INFO @ Tue, 02 Aug 2022 19:04:17: 20000000 INFO @ Tue, 02 Aug 2022 19:04:21: 25000000 INFO @ Tue, 02 Aug 2022 19:04:21: 22000000 INFO @ Tue, 02 Aug 2022 19:04:26: 21000000 INFO @ Tue, 02 Aug 2022 19:04:31: 23000000 INFO @ Tue, 02 Aug 2022 19:04:31: 26000000 INFO @ Tue, 02 Aug 2022 19:04:35: 22000000 INFO @ Tue, 02 Aug 2022 19:04:41: 24000000 INFO @ Tue, 02 Aug 2022 19:04:41: 27000000 INFO @ Tue, 02 Aug 2022 19:04:44: 23000000 INFO @ Tue, 02 Aug 2022 19:04:51: 25000000 INFO @ Tue, 02 Aug 2022 19:04:51: 28000000 INFO @ Tue, 02 Aug 2022 19:04:53: 24000000 INFO @ Tue, 02 Aug 2022 19:05:01: 26000000 INFO @ Tue, 02 Aug 2022 19:05:01: 29000000 INFO @ Tue, 02 Aug 2022 19:05:02: 25000000 INFO @ Tue, 02 Aug 2022 19:05:11: 30000000 INFO @ Tue, 02 Aug 2022 19:05:11: 27000000 INFO @ Tue, 02 Aug 2022 19:05:11: 26000000 INFO @ Tue, 02 Aug 2022 19:05:20: 31000000 INFO @ Tue, 02 Aug 2022 19:05:20: 28000000 INFO @ Tue, 02 Aug 2022 19:05:21: 27000000 INFO @ Tue, 02 Aug 2022 19:05:29: 32000000 INFO @ Tue, 02 Aug 2022 19:05:29: 28000000 INFO @ Tue, 02 Aug 2022 19:05:30: 29000000 INFO @ Tue, 02 Aug 2022 19:05:38: 29000000 INFO @ Tue, 02 Aug 2022 19:05:38: 33000000 INFO @ Tue, 02 Aug 2022 19:05:39: 30000000 INFO @ Tue, 02 Aug 2022 19:05:46: 30000000 INFO @ Tue, 02 Aug 2022 19:05:48: 34000000 INFO @ Tue, 02 Aug 2022 19:05:49: 31000000 INFO @ Tue, 02 Aug 2022 19:05:55: 31000000 INFO @ Tue, 02 Aug 2022 19:05:57: 35000000 INFO @ Tue, 02 Aug 2022 19:05:58: 32000000 INFO @ Tue, 02 Aug 2022 19:06:03: 32000000 INFO @ Tue, 02 Aug 2022 19:06:06: 36000000 INFO @ Tue, 02 Aug 2022 19:06:08: 33000000 INFO @ Tue, 02 Aug 2022 19:06:12: 33000000 INFO @ Tue, 02 Aug 2022 19:06:15: 37000000 INFO @ Tue, 02 Aug 2022 19:06:17: 34000000 INFO @ Tue, 02 Aug 2022 19:06:21: 34000000 INFO @ Tue, 02 Aug 2022 19:06:24: 38000000 INFO @ Tue, 02 Aug 2022 19:06:26: 35000000 INFO @ Tue, 02 Aug 2022 19:06:29: 35000000 INFO @ Tue, 02 Aug 2022 19:06:33: 39000000 INFO @ Tue, 02 Aug 2022 19:06:35: 36000000 INFO @ Tue, 02 Aug 2022 19:06:37: 36000000 INFO @ Tue, 02 Aug 2022 19:06:41: 40000000 INFO @ Tue, 02 Aug 2022 19:06:44: 37000000 INFO @ Tue, 02 Aug 2022 19:06:45: 37000000 INFO @ Tue, 02 Aug 2022 19:06:50: 41000000 INFO @ Tue, 02 Aug 2022 19:06:54: 38000000 INFO @ Tue, 02 Aug 2022 19:06:54: 38000000 INFO @ Tue, 02 Aug 2022 19:06:59: 42000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 19:07:02: 39000000 INFO @ Tue, 02 Aug 2022 19:07:03: 39000000 INFO @ Tue, 02 Aug 2022 19:07:08: 43000000 INFO @ Tue, 02 Aug 2022 19:07:11: 40000000 INFO @ Tue, 02 Aug 2022 19:07:12: 40000000 INFO @ Tue, 02 Aug 2022 19:07:17: 44000000 INFO @ Tue, 02 Aug 2022 19:07:19: 41000000 INFO @ Tue, 02 Aug 2022 19:07:20: 41000000 INFO @ Tue, 02 Aug 2022 19:07:25: 45000000 INFO @ Tue, 02 Aug 2022 19:07:27: 42000000 INFO @ Tue, 02 Aug 2022 19:07:29: 42000000 INFO @ Tue, 02 Aug 2022 19:07:35: 46000000 INFO @ Tue, 02 Aug 2022 19:07:36: 43000000 INFO @ Tue, 02 Aug 2022 19:07:38: 43000000 INFO @ Tue, 02 Aug 2022 19:07:43: 47000000 INFO @ Tue, 02 Aug 2022 19:07:44: 44000000 INFO @ Tue, 02 Aug 2022 19:07:47: 44000000 INFO @ Tue, 02 Aug 2022 19:07:52: 48000000 INFO @ Tue, 02 Aug 2022 19:07:53: 45000000 INFO @ Tue, 02 Aug 2022 19:07:56: 45000000 INFO @ Tue, 02 Aug 2022 19:08:01: 46000000 INFO @ Tue, 02 Aug 2022 19:08:02: 49000000 INFO @ Tue, 02 Aug 2022 19:08:06: 46000000 INFO @ Tue, 02 Aug 2022 19:08:11: 47000000 INFO @ Tue, 02 Aug 2022 19:08:12: 50000000 INFO @ Tue, 02 Aug 2022 19:08:15: 47000000 INFO @ Tue, 02 Aug 2022 19:08:19: 48000000 INFO @ Tue, 02 Aug 2022 19:08:21: 51000000 INFO @ Tue, 02 Aug 2022 19:08:25: 48000000 INFO @ Tue, 02 Aug 2022 19:08:28: 49000000 INFO @ Tue, 02 Aug 2022 19:08:31: 52000000 INFO @ Tue, 02 Aug 2022 19:08:34: 49000000 INFO @ Tue, 02 Aug 2022 19:08:38: 50000000 INFO @ Tue, 02 Aug 2022 19:08:42: 53000000 INFO @ Tue, 02 Aug 2022 19:08:44: 50000000 INFO @ Tue, 02 Aug 2022 19:08:47: 51000000 INFO @ Tue, 02 Aug 2022 19:08:51: 54000000 INFO @ Tue, 02 Aug 2022 19:08:53: 51000000 INFO @ Tue, 02 Aug 2022 19:08:57: 52000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 19:09:00: 55000000 INFO @ Tue, 02 Aug 2022 19:09:04: 52000000 INFO @ Tue, 02 Aug 2022 19:09:06: 53000000 INFO @ Tue, 02 Aug 2022 19:09:10: 56000000 INFO @ Tue, 02 Aug 2022 19:09:14: 53000000 INFO @ Tue, 02 Aug 2022 19:09:15: 54000000 INFO @ Tue, 02 Aug 2022 19:09:19: 57000000 INFO @ Tue, 02 Aug 2022 19:09:23: 54000000 INFO @ Tue, 02 Aug 2022 19:09:24: 55000000 INFO @ Tue, 02 Aug 2022 19:09:29: 58000000 INFO @ Tue, 02 Aug 2022 19:09:33: 55000000 INFO @ Tue, 02 Aug 2022 19:09:33: 56000000 INFO @ Tue, 02 Aug 2022 19:09:38: 59000000 INFO @ Tue, 02 Aug 2022 19:09:42: 57000000 INFO @ Tue, 02 Aug 2022 19:09:42: 56000000 INFO @ Tue, 02 Aug 2022 19:09:48: 60000000 INFO @ Tue, 02 Aug 2022 19:09:51: 58000000 INFO @ Tue, 02 Aug 2022 19:09:51: 57000000 INFO @ Tue, 02 Aug 2022 19:09:57: 61000000 INFO @ Tue, 02 Aug 2022 19:10:00: 59000000 INFO @ Tue, 02 Aug 2022 19:10:00: 58000000 INFO @ Tue, 02 Aug 2022 19:10:06: 62000000 INFO @ Tue, 02 Aug 2022 19:10:09: 60000000 INFO @ Tue, 02 Aug 2022 19:10:09: 59000000 INFO @ Tue, 02 Aug 2022 19:10:15: 63000000 INFO @ Tue, 02 Aug 2022 19:10:17: 61000000 INFO @ Tue, 02 Aug 2022 19:10:19: 60000000 INFO @ Tue, 02 Aug 2022 19:10:25: 64000000 INFO @ Tue, 02 Aug 2022 19:10:26: 62000000 INFO @ Tue, 02 Aug 2022 19:10:28: 61000000 INFO @ Tue, 02 Aug 2022 19:10:29: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:10:29: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:10:29: #1 total tags in treatment: 24520931 INFO @ Tue, 02 Aug 2022 19:10:29: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:10:29: #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 19:10:30: #1 tags after filtering in treatment: 16271009 INFO @ Tue, 02 Aug 2022 19:10:30: #1 Redundant rate of treatment: 0.34 INFO @ Tue, 02 Aug 2022 19:10:30: #1 finished! INFO @ Tue, 02 Aug 2022 19:10:30: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:10:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:10:31: #2 number of paired peaks: 673 WARNING @ Tue, 02 Aug 2022 19:10:31: Fewer paired peaks (673) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 673 pairs to build model! INFO @ Tue, 02 Aug 2022 19:10:31: start model_add_line... INFO @ Tue, 02 Aug 2022 19:10:32: start X-correlation... INFO @ Tue, 02 Aug 2022 19:10:32: end of X-cor INFO @ Tue, 02 Aug 2022 19:10:32: #2 finished! INFO @ Tue, 02 Aug 2022 19:10:32: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 19:10:32: #2 alternative fragment length(s) may be 4,89 bps INFO @ Tue, 02 Aug 2022 19:10:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05_model.r WARNING @ Tue, 02 Aug 2022 19:10:32: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:10:32: #2 You may need to consider one of the other alternative d(s): 4,89 WARNING @ Tue, 02 Aug 2022 19:10:32: #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 19:10:32: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:10:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:10:35: 63000000 INFO @ Tue, 02 Aug 2022 19:10:36: 62000000 INFO @ Tue, 02 Aug 2022 19:10:44: 64000000 INFO @ Tue, 02 Aug 2022 19:10:45: 63000000 INFO @ Tue, 02 Aug 2022 19:10:48: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:10:48: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:10:48: #1 total tags in treatment: 24520931 INFO @ Tue, 02 Aug 2022 19:10:48: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:10:48: #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 19:10:49: #1 tags after filtering in treatment: 16271009 INFO @ Tue, 02 Aug 2022 19:10:49: #1 Redundant rate of treatment: 0.34 INFO @ Tue, 02 Aug 2022 19:10:49: #1 finished! INFO @ Tue, 02 Aug 2022 19:10:49: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:10:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:10:50: #2 number of paired peaks: 673 WARNING @ Tue, 02 Aug 2022 19:10:50: Fewer paired peaks (673) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 673 pairs to build model! INFO @ Tue, 02 Aug 2022 19:10:50: start model_add_line... INFO @ Tue, 02 Aug 2022 19:10:51: start X-correlation... INFO @ Tue, 02 Aug 2022 19:10:51: end of X-cor INFO @ Tue, 02 Aug 2022 19:10:51: #2 finished! INFO @ Tue, 02 Aug 2022 19:10:51: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 19:10:51: #2 alternative fragment length(s) may be 4,89 bps INFO @ Tue, 02 Aug 2022 19:10:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20_model.r WARNING @ Tue, 02 Aug 2022 19:10:51: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:10:51: #2 You may need to consider one of the other alternative d(s): 4,89 WARNING @ Tue, 02 Aug 2022 19:10:51: #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 19:10:51: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:10:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:10:54: 64000000 INFO @ Tue, 02 Aug 2022 19:10:58: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 19:10:58: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 19:10:58: #1 total tags in treatment: 24520931 INFO @ Tue, 02 Aug 2022 19:10:58: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 19:10:58: #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 19:10:59: #1 tags after filtering in treatment: 16271009 INFO @ Tue, 02 Aug 2022 19:10:59: #1 Redundant rate of treatment: 0.34 INFO @ Tue, 02 Aug 2022 19:10:59: #1 finished! INFO @ Tue, 02 Aug 2022 19:10:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 19:10:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 19:11:00: #2 number of paired peaks: 673 WARNING @ Tue, 02 Aug 2022 19:11:00: Fewer paired peaks (673) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 673 pairs to build model! INFO @ Tue, 02 Aug 2022 19:11:00: start model_add_line... INFO @ Tue, 02 Aug 2022 19:11:01: start X-correlation... INFO @ Tue, 02 Aug 2022 19:11:01: end of X-cor INFO @ Tue, 02 Aug 2022 19:11:01: #2 finished! INFO @ Tue, 02 Aug 2022 19:11:01: #2 predicted fragment length is 89 bps INFO @ Tue, 02 Aug 2022 19:11:01: #2 alternative fragment length(s) may be 4,89 bps INFO @ Tue, 02 Aug 2022 19:11:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10_model.r WARNING @ Tue, 02 Aug 2022 19:11:01: #2 Since the d (89) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 19:11:01: #2 You may need to consider one of the other alternative d(s): 4,89 WARNING @ Tue, 02 Aug 2022 19:11:01: #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 19:11:01: #3 Call peaks... INFO @ Tue, 02 Aug 2022 19:11:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 19:11:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:11:40: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:11:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05_peaks.xls INFO @ Tue, 02 Aug 2022 19:11:50: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 19:11:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:11:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.05_summits.bed INFO @ Tue, 02 Aug 2022 19:11:50: Done! pass1 - making usageList (15 chroms): 5 millis pass2 - checking and writing primary data (15607 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:12:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20_peaks.xls INFO @ Tue, 02 Aug 2022 19:12:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:12:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.20_summits.bed INFO @ Tue, 02 Aug 2022 19:12:07: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (2451 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 19:12:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10_peaks.xls INFO @ Tue, 02 Aug 2022 19:12:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 19:12:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178834/SRX12178834.10_summits.bed INFO @ Tue, 02 Aug 2022 19:12:16: Done! pass1 - making usageList (14 chroms): 3 millis pass2 - checking and writing primary data (9278 records, 4 fields): 20 millis CompletedMACS2peakCalling