Job ID = 16436252 SRX = SRX12178883 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:11:52 prefetch.2.10.7: 1) Downloading 'SRR15888031'... 2022-08-02T02:11:52 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:14:01 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:14:01 prefetch.2.10.7: 1) 'SRR15888031' was downloaded successfully 2022-08-02T02:14:01 prefetch.2.10.7: 'SRR15888031' has 0 unresolved dependencies Read 41609163 spots for SRR15888031/SRR15888031.sra Written 41609163 spots for SRR15888031/SRR15888031.sra fastq に変換しました。 bowtie でマッピング中... Your job 16436951 ("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: 00:43:14 41609163 reads; of these: 41609163 (100.00%) were paired; of these: 11821300 (28.41%) aligned concordantly 0 times 24049245 (57.80%) aligned concordantly exactly 1 time 5738618 (13.79%) aligned concordantly >1 times ---- 11821300 pairs aligned concordantly 0 times; of these: 4813176 (40.72%) aligned discordantly 1 time ---- 7008124 pairs aligned 0 times concordantly or discordantly; of these: 14016248 mates make up the pairs; of these: 8354673 (59.61%) aligned 0 times 3828582 (27.32%) aligned exactly 1 time 1832993 (13.08%) aligned >1 times 89.96% overall alignment rate Time searching: 00:43:14 Overall time: 00:43:14 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] 6132938 / 34470821 = 0.1779 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 12:18:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.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 12:18:30: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:18:30: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:18:36: 1000000 INFO @ Tue, 02 Aug 2022 12:18:41: 2000000 INFO @ Tue, 02 Aug 2022 12:18:46: 3000000 INFO @ Tue, 02 Aug 2022 12:18:51: 4000000 INFO @ Tue, 02 Aug 2022 12:18:57: 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 12:19:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.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 12:19:00: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:19:00: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:19:02: 6000000 INFO @ Tue, 02 Aug 2022 12:19:07: 1000000 INFO @ Tue, 02 Aug 2022 12:19:08: 7000000 INFO @ Tue, 02 Aug 2022 12:19:12: 2000000 INFO @ Tue, 02 Aug 2022 12:19:13: 8000000 INFO @ Tue, 02 Aug 2022 12:19:18: 3000000 INFO @ Tue, 02 Aug 2022 12:19:19: 9000000 INFO @ Tue, 02 Aug 2022 12:19:24: 4000000 INFO @ Tue, 02 Aug 2022 12:19:24: 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 12:19:30: 11000000 INFO @ Tue, 02 Aug 2022 12:19:30: 5000000 INFO @ Tue, 02 Aug 2022 12:19:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.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 12:19:31: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:19:31: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:19:35: 12000000 INFO @ Tue, 02 Aug 2022 12:19:36: 6000000 INFO @ Tue, 02 Aug 2022 12:19:37: 1000000 INFO @ Tue, 02 Aug 2022 12:19:41: 13000000 INFO @ Tue, 02 Aug 2022 12:19:42: 7000000 INFO @ Tue, 02 Aug 2022 12:19:43: 2000000 INFO @ Tue, 02 Aug 2022 12:19:47: 14000000 INFO @ Tue, 02 Aug 2022 12:19:48: 8000000 INFO @ Tue, 02 Aug 2022 12:19:49: 3000000 INFO @ Tue, 02 Aug 2022 12:19:53: 15000000 INFO @ Tue, 02 Aug 2022 12:19:54: 9000000 INFO @ Tue, 02 Aug 2022 12:19:55: 4000000 INFO @ Tue, 02 Aug 2022 12:19:59: 16000000 INFO @ Tue, 02 Aug 2022 12:20:00: 10000000 INFO @ Tue, 02 Aug 2022 12:20:02: 5000000 INFO @ Tue, 02 Aug 2022 12:20:05: 17000000 INFO @ Tue, 02 Aug 2022 12:20:06: 11000000 INFO @ Tue, 02 Aug 2022 12:20:08: 6000000 INFO @ Tue, 02 Aug 2022 12:20:11: 18000000 INFO @ Tue, 02 Aug 2022 12:20:12: 12000000 INFO @ Tue, 02 Aug 2022 12:20:14: 7000000 INFO @ Tue, 02 Aug 2022 12:20:17: 19000000 INFO @ Tue, 02 Aug 2022 12:20:18: 13000000 INFO @ Tue, 02 Aug 2022 12:20:19: 8000000 INFO @ Tue, 02 Aug 2022 12:20:23: 20000000 INFO @ Tue, 02 Aug 2022 12:20:24: 14000000 INFO @ Tue, 02 Aug 2022 12:20:26: 9000000 INFO @ Tue, 02 Aug 2022 12:20:29: 21000000 INFO @ Tue, 02 Aug 2022 12:20:30: 15000000 INFO @ Tue, 02 Aug 2022 12:20:31: 10000000 INFO @ Tue, 02 Aug 2022 12:20:35: 22000000 INFO @ Tue, 02 Aug 2022 12:20:36: 16000000 INFO @ Tue, 02 Aug 2022 12:20:37: 11000000 INFO @ Tue, 02 Aug 2022 12:20:42: 23000000 INFO @ Tue, 02 Aug 2022 12:20:42: 17000000 INFO @ Tue, 02 Aug 2022 12:20:44: 12000000 INFO @ Tue, 02 Aug 2022 12:20:48: 24000000 INFO @ Tue, 02 Aug 2022 12:20:48: 18000000 INFO @ Tue, 02 Aug 2022 12:20:50: 13000000 INFO @ Tue, 02 Aug 2022 12:20:54: 25000000 INFO @ Tue, 02 Aug 2022 12:20:54: 19000000 INFO @ Tue, 02 Aug 2022 12:20:57: 14000000 INFO @ Tue, 02 Aug 2022 12:21:00: 26000000 INFO @ Tue, 02 Aug 2022 12:21:00: 20000000 INFO @ Tue, 02 Aug 2022 12:21:03: 15000000 INFO @ Tue, 02 Aug 2022 12:21:06: 27000000 INFO @ Tue, 02 Aug 2022 12:21:07: 21000000 INFO @ Tue, 02 Aug 2022 12:21:09: 16000000 INFO @ Tue, 02 Aug 2022 12:21:12: 28000000 INFO @ Tue, 02 Aug 2022 12:21:13: 22000000 INFO @ Tue, 02 Aug 2022 12:21:15: 17000000 INFO @ Tue, 02 Aug 2022 12:21:18: 29000000 INFO @ Tue, 02 Aug 2022 12:21:19: 23000000 INFO @ Tue, 02 Aug 2022 12:21:21: 18000000 INFO @ Tue, 02 Aug 2022 12:21:24: 30000000 INFO @ Tue, 02 Aug 2022 12:21:25: 24000000 INFO @ Tue, 02 Aug 2022 12:21:27: 19000000 INFO @ Tue, 02 Aug 2022 12:21:30: 31000000 INFO @ Tue, 02 Aug 2022 12:21:31: 25000000 INFO @ Tue, 02 Aug 2022 12:21:33: 20000000 INFO @ Tue, 02 Aug 2022 12:21:36: 32000000 INFO @ Tue, 02 Aug 2022 12:21:37: 26000000 INFO @ Tue, 02 Aug 2022 12:21:40: 21000000 INFO @ Tue, 02 Aug 2022 12:21:43: 33000000 INFO @ Tue, 02 Aug 2022 12:21:44: 27000000 INFO @ Tue, 02 Aug 2022 12:21:46: 22000000 INFO @ Tue, 02 Aug 2022 12:21:49: 34000000 INFO @ Tue, 02 Aug 2022 12:21:50: 28000000 INFO @ Tue, 02 Aug 2022 12:21:52: 23000000 INFO @ Tue, 02 Aug 2022 12:21:55: 29000000 INFO @ Tue, 02 Aug 2022 12:21:55: 35000000 INFO @ Tue, 02 Aug 2022 12:21:58: 24000000 INFO @ Tue, 02 Aug 2022 12:22:01: 30000000 INFO @ Tue, 02 Aug 2022 12:22:01: 36000000 INFO @ Tue, 02 Aug 2022 12:22:04: 25000000 INFO @ Tue, 02 Aug 2022 12:22:08: 31000000 INFO @ Tue, 02 Aug 2022 12:22:08: 37000000 INFO @ Tue, 02 Aug 2022 12:22:10: 26000000 INFO @ Tue, 02 Aug 2022 12:22:13: 32000000 INFO @ Tue, 02 Aug 2022 12:22:14: 38000000 INFO @ Tue, 02 Aug 2022 12:22:16: 27000000 INFO @ Tue, 02 Aug 2022 12:22:19: 33000000 INFO @ Tue, 02 Aug 2022 12:22:20: 39000000 INFO @ Tue, 02 Aug 2022 12:22:22: 28000000 INFO @ Tue, 02 Aug 2022 12:22:25: 34000000 INFO @ Tue, 02 Aug 2022 12:22:26: 40000000 INFO @ Tue, 02 Aug 2022 12:22:28: 29000000 INFO @ Tue, 02 Aug 2022 12:22:31: 35000000 INFO @ Tue, 02 Aug 2022 12:22:32: 41000000 INFO @ Tue, 02 Aug 2022 12:22:34: 30000000 INFO @ Tue, 02 Aug 2022 12:22:37: 36000000 INFO @ Tue, 02 Aug 2022 12:22:38: 42000000 INFO @ Tue, 02 Aug 2022 12:22:40: 31000000 INFO @ Tue, 02 Aug 2022 12:22:43: 37000000 INFO @ Tue, 02 Aug 2022 12:22:45: 43000000 INFO @ Tue, 02 Aug 2022 12:22:46: 32000000 INFO @ Tue, 02 Aug 2022 12:22:49: 38000000 INFO @ Tue, 02 Aug 2022 12:22:51: 44000000 INFO @ Tue, 02 Aug 2022 12:22:52: 33000000 INFO @ Tue, 02 Aug 2022 12:22:55: 39000000 INFO @ Tue, 02 Aug 2022 12:22:57: 45000000 INFO @ Tue, 02 Aug 2022 12:22:58: 34000000 INFO @ Tue, 02 Aug 2022 12:23:01: 40000000 INFO @ Tue, 02 Aug 2022 12:23:03: 46000000 INFO @ Tue, 02 Aug 2022 12:23:04: 35000000 INFO @ Tue, 02 Aug 2022 12:23:07: 41000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:23:09: 47000000 INFO @ Tue, 02 Aug 2022 12:23:10: 36000000 INFO @ Tue, 02 Aug 2022 12:23:13: 42000000 INFO @ Tue, 02 Aug 2022 12:23:15: 48000000 INFO @ Tue, 02 Aug 2022 12:23:16: 37000000 INFO @ Tue, 02 Aug 2022 12:23:19: 43000000 INFO @ Tue, 02 Aug 2022 12:23:20: 49000000 INFO @ Tue, 02 Aug 2022 12:23:22: 38000000 INFO @ Tue, 02 Aug 2022 12:23:25: 44000000 INFO @ Tue, 02 Aug 2022 12:23:27: 50000000 INFO @ Tue, 02 Aug 2022 12:23:28: 39000000 INFO @ Tue, 02 Aug 2022 12:23:32: 45000000 INFO @ Tue, 02 Aug 2022 12:23:33: 51000000 INFO @ Tue, 02 Aug 2022 12:23:35: 40000000 INFO @ Tue, 02 Aug 2022 12:23:38: 46000000 INFO @ Tue, 02 Aug 2022 12:23:39: 52000000 INFO @ Tue, 02 Aug 2022 12:23:41: 41000000 INFO @ Tue, 02 Aug 2022 12:23:44: 47000000 INFO @ Tue, 02 Aug 2022 12:23:45: 53000000 INFO @ Tue, 02 Aug 2022 12:23:47: 42000000 INFO @ Tue, 02 Aug 2022 12:23:50: 48000000 INFO @ Tue, 02 Aug 2022 12:23:52: 54000000 INFO @ Tue, 02 Aug 2022 12:23:53: 43000000 INFO @ Tue, 02 Aug 2022 12:23:56: 49000000 INFO @ Tue, 02 Aug 2022 12:23:58: 55000000 INFO @ Tue, 02 Aug 2022 12:23:59: 44000000 INFO @ Tue, 02 Aug 2022 12:24:02: 50000000 INFO @ Tue, 02 Aug 2022 12:24:04: 56000000 INFO @ Tue, 02 Aug 2022 12:24:05: 45000000 INFO @ Tue, 02 Aug 2022 12:24:08: 51000000 INFO @ Tue, 02 Aug 2022 12:24:10: 57000000 INFO @ Tue, 02 Aug 2022 12:24:11: 46000000 INFO @ Tue, 02 Aug 2022 12:24:13: 52000000 INFO @ Tue, 02 Aug 2022 12:24:16: 58000000 INFO @ Tue, 02 Aug 2022 12:24:17: 47000000 INFO @ Tue, 02 Aug 2022 12:24:19: 53000000 INFO @ Tue, 02 Aug 2022 12:24:22: 48000000 INFO @ Tue, 02 Aug 2022 12:24:23: 59000000 INFO @ Tue, 02 Aug 2022 12:24:25: 54000000 INFO @ Tue, 02 Aug 2022 12:24:28: 49000000 INFO @ Tue, 02 Aug 2022 12:24:29: 60000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:24:32: 55000000 INFO @ Tue, 02 Aug 2022 12:24:35: 50000000 INFO @ Tue, 02 Aug 2022 12:24:36: 61000000 INFO @ Tue, 02 Aug 2022 12:24:38: 56000000 INFO @ Tue, 02 Aug 2022 12:24:41: 51000000 INFO @ Tue, 02 Aug 2022 12:24:42: 62000000 INFO @ Tue, 02 Aug 2022 12:24:44: 57000000 INFO @ Tue, 02 Aug 2022 12:24:46: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:24:46: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:24:46: #1 total tags in treatment: 24145956 INFO @ Tue, 02 Aug 2022 12:24:46: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:24:46: #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 12:24:47: #1 tags after filtering in treatment: 16978678 INFO @ Tue, 02 Aug 2022 12:24:47: #1 Redundant rate of treatment: 0.30 INFO @ Tue, 02 Aug 2022 12:24:47: #1 finished! INFO @ Tue, 02 Aug 2022 12:24:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:24:47: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:24:47: 52000000 INFO @ Tue, 02 Aug 2022 12:24:48: #2 number of paired peaks: 288 WARNING @ Tue, 02 Aug 2022 12:24:48: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 02 Aug 2022 12:24:48: start model_add_line... INFO @ Tue, 02 Aug 2022 12:24:48: start X-correlation... INFO @ Tue, 02 Aug 2022 12:24:48: end of X-cor INFO @ Tue, 02 Aug 2022 12:24:48: #2 finished! INFO @ Tue, 02 Aug 2022 12:24:48: #2 predicted fragment length is 83 bps INFO @ Tue, 02 Aug 2022 12:24:48: #2 alternative fragment length(s) may be 4,83 bps INFO @ Tue, 02 Aug 2022 12:24:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05_model.r WARNING @ Tue, 02 Aug 2022 12:24:48: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:24:48: #2 You may need to consider one of the other alternative d(s): 4,83 WARNING @ Tue, 02 Aug 2022 12:24:48: #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 12:24:48: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:24:48: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:24:50: 58000000 INFO @ Tue, 02 Aug 2022 12:24:53: 53000000 INFO @ Tue, 02 Aug 2022 12:24:56: 59000000 INFO @ Tue, 02 Aug 2022 12:24:59: 54000000 INFO @ Tue, 02 Aug 2022 12:25:02: 60000000 INFO @ Tue, 02 Aug 2022 12:25:05: 55000000 INFO @ Tue, 02 Aug 2022 12:25:09: 61000000 INFO @ Tue, 02 Aug 2022 12:25:12: 56000000 INFO @ Tue, 02 Aug 2022 12:25:15: 62000000 INFO @ Tue, 02 Aug 2022 12:25:18: 57000000 INFO @ Tue, 02 Aug 2022 12:25:18: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:25:18: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:25:18: #1 total tags in treatment: 24145956 INFO @ Tue, 02 Aug 2022 12:25:18: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:25:18: #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 12:25:19: #1 tags after filtering in treatment: 16978678 INFO @ Tue, 02 Aug 2022 12:25:19: #1 Redundant rate of treatment: 0.30 INFO @ Tue, 02 Aug 2022 12:25:19: #1 finished! INFO @ Tue, 02 Aug 2022 12:25:19: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:25:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:25:20: #2 number of paired peaks: 288 WARNING @ Tue, 02 Aug 2022 12:25:20: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 02 Aug 2022 12:25:20: start model_add_line... INFO @ Tue, 02 Aug 2022 12:25:20: start X-correlation... INFO @ Tue, 02 Aug 2022 12:25:20: end of X-cor INFO @ Tue, 02 Aug 2022 12:25:20: #2 finished! INFO @ Tue, 02 Aug 2022 12:25:20: #2 predicted fragment length is 83 bps INFO @ Tue, 02 Aug 2022 12:25:20: #2 alternative fragment length(s) may be 4,83 bps INFO @ Tue, 02 Aug 2022 12:25:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10_model.r WARNING @ Tue, 02 Aug 2022 12:25:20: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:25:20: #2 You may need to consider one of the other alternative d(s): 4,83 WARNING @ Tue, 02 Aug 2022 12:25:20: #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 12:25:20: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:25:20: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:25:21: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:25:24: 58000000 INFO @ Tue, 02 Aug 2022 12:25:30: 59000000 INFO @ Tue, 02 Aug 2022 12:25:36: 60000000 INFO @ Tue, 02 Aug 2022 12:25:38: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:25:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:25:38: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.05_summits.bed INFO @ Tue, 02 Aug 2022 12:25:38: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (13900 records, 4 fields): 84 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:25:41: 61000000 INFO @ Tue, 02 Aug 2022 12:25:47: 62000000 INFO @ Tue, 02 Aug 2022 12:25:50: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:25:50: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:25:50: #1 total tags in treatment: 24145956 INFO @ Tue, 02 Aug 2022 12:25:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:25:50: #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 12:25:50: #1 tags after filtering in treatment: 16978678 INFO @ Tue, 02 Aug 2022 12:25:50: #1 Redundant rate of treatment: 0.30 INFO @ Tue, 02 Aug 2022 12:25:50: #1 finished! INFO @ Tue, 02 Aug 2022 12:25:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:25:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:25:51: #2 number of paired peaks: 288 WARNING @ Tue, 02 Aug 2022 12:25:51: Fewer paired peaks (288) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 288 pairs to build model! INFO @ Tue, 02 Aug 2022 12:25:51: start model_add_line... INFO @ Tue, 02 Aug 2022 12:25:52: start X-correlation... INFO @ Tue, 02 Aug 2022 12:25:52: end of X-cor INFO @ Tue, 02 Aug 2022 12:25:52: #2 finished! INFO @ Tue, 02 Aug 2022 12:25:52: #2 predicted fragment length is 83 bps INFO @ Tue, 02 Aug 2022 12:25:52: #2 alternative fragment length(s) may be 4,83 bps INFO @ Tue, 02 Aug 2022 12:25:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20_model.r WARNING @ Tue, 02 Aug 2022 12:25:52: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:25:52: #2 You may need to consider one of the other alternative d(s): 4,83 WARNING @ Tue, 02 Aug 2022 12:25:52: #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 12:25:52: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:25:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:25:53: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:26:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:26:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:26:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.10_summits.bed INFO @ Tue, 02 Aug 2022 12:26:11: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (7318 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:26:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:26:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:26:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:26:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178883/SRX12178883.20_summits.bed INFO @ Tue, 02 Aug 2022 12:26:43: Done! pass1 - making usageList (11 chroms): 1 millis pass2 - checking and writing primary data (1488 records, 4 fields): 20 millis CompletedMACS2peakCalling