Job ID = 16436261 SRX = SRX12178891 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T02:15:44 prefetch.2.10.7: 1) Downloading 'SRR15888023'... 2022-08-02T02:15:44 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T02:18:00 prefetch.2.10.7: HTTPS download succeed 2022-08-02T02:18:00 prefetch.2.10.7: 1) 'SRR15888023' was downloaded successfully 2022-08-02T02:18:00 prefetch.2.10.7: 'SRR15888023' has 0 unresolved dependencies Read 41102932 spots for SRR15888023/SRR15888023.sra Written 41102932 spots for SRR15888023/SRR15888023.sra fastq に変換しました。 bowtie でマッピング中... Your job 16436938 ("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: 00:35:54 41102932 reads; of these: 41102932 (100.00%) were paired; of these: 10985159 (26.73%) aligned concordantly 0 times 26303394 (63.99%) aligned concordantly exactly 1 time 3814379 (9.28%) aligned concordantly >1 times ---- 10985159 pairs aligned concordantly 0 times; of these: 4458572 (40.59%) aligned discordantly 1 time ---- 6526587 pairs aligned 0 times concordantly or discordantly; of these: 13053174 mates make up the pairs; of these: 8180822 (62.67%) aligned 0 times 3621318 (27.74%) aligned exactly 1 time 1251034 (9.58%) aligned >1 times 90.05% overall alignment rate Time searching: 00:35:54 Overall time: 00:35:54 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] 5976057 / 34481012 = 0.1733 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 12:15:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.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 12:15:32: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:15:32: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:15:36: 1000000 INFO @ Tue, 02 Aug 2022 12:15:41: 2000000 INFO @ Tue, 02 Aug 2022 12:15:45: 3000000 INFO @ Tue, 02 Aug 2022 12:15:50: 4000000 INFO @ Tue, 02 Aug 2022 12:15:54: 5000000 INFO @ Tue, 02 Aug 2022 12:15:59: 6000000 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 12:16:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.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 12:16:02: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:16:02: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:16:04: 7000000 INFO @ Tue, 02 Aug 2022 12:16:07: 1000000 INFO @ Tue, 02 Aug 2022 12:16:08: 8000000 INFO @ Tue, 02 Aug 2022 12:16:12: 2000000 INFO @ Tue, 02 Aug 2022 12:16:13: 9000000 INFO @ Tue, 02 Aug 2022 12:16:16: 3000000 INFO @ Tue, 02 Aug 2022 12:16:18: 10000000 INFO @ Tue, 02 Aug 2022 12:16:21: 4000000 INFO @ Tue, 02 Aug 2022 12:16:23: 11000000 INFO @ Tue, 02 Aug 2022 12:16:26: 5000000 INFO @ Tue, 02 Aug 2022 12:16:28: 12000000 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 12:16:31: 6000000 INFO @ Tue, 02 Aug 2022 12:16:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.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 12:16:32: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:16:32: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:16:34: 13000000 INFO @ Tue, 02 Aug 2022 12:16:36: 7000000 INFO @ Tue, 02 Aug 2022 12:16:38: 1000000 INFO @ Tue, 02 Aug 2022 12:16:39: 14000000 INFO @ Tue, 02 Aug 2022 12:16:41: 8000000 INFO @ Tue, 02 Aug 2022 12:16:43: 2000000 INFO @ Tue, 02 Aug 2022 12:16:44: 15000000 INFO @ Tue, 02 Aug 2022 12:16:46: 9000000 INFO @ Tue, 02 Aug 2022 12:16:49: 3000000 INFO @ Tue, 02 Aug 2022 12:16:49: 16000000 INFO @ Tue, 02 Aug 2022 12:16:52: 10000000 INFO @ Tue, 02 Aug 2022 12:16:55: 17000000 INFO @ Tue, 02 Aug 2022 12:16:55: 4000000 INFO @ Tue, 02 Aug 2022 12:16:57: 11000000 INFO @ Tue, 02 Aug 2022 12:17:00: 18000000 INFO @ Tue, 02 Aug 2022 12:17:01: 5000000 INFO @ Tue, 02 Aug 2022 12:17:03: 12000000 INFO @ Tue, 02 Aug 2022 12:17:06: 19000000 INFO @ Tue, 02 Aug 2022 12:17:07: 6000000 INFO @ Tue, 02 Aug 2022 12:17:08: 13000000 INFO @ Tue, 02 Aug 2022 12:17:11: 20000000 INFO @ Tue, 02 Aug 2022 12:17:13: 7000000 INFO @ Tue, 02 Aug 2022 12:17:13: 14000000 INFO @ Tue, 02 Aug 2022 12:17:16: 21000000 INFO @ Tue, 02 Aug 2022 12:17:18: 8000000 INFO @ Tue, 02 Aug 2022 12:17:19: 15000000 INFO @ Tue, 02 Aug 2022 12:17:22: 22000000 INFO @ Tue, 02 Aug 2022 12:17:24: 16000000 INFO @ Tue, 02 Aug 2022 12:17:24: 9000000 INFO @ Tue, 02 Aug 2022 12:17:27: 23000000 INFO @ Tue, 02 Aug 2022 12:17:29: 17000000 INFO @ Tue, 02 Aug 2022 12:17:30: 10000000 INFO @ Tue, 02 Aug 2022 12:17:32: 24000000 INFO @ Tue, 02 Aug 2022 12:17:35: 18000000 INFO @ Tue, 02 Aug 2022 12:17:35: 11000000 INFO @ Tue, 02 Aug 2022 12:17:38: 25000000 INFO @ Tue, 02 Aug 2022 12:17:40: 19000000 INFO @ Tue, 02 Aug 2022 12:17:41: 12000000 INFO @ Tue, 02 Aug 2022 12:17:43: 26000000 INFO @ Tue, 02 Aug 2022 12:17:45: 20000000 INFO @ Tue, 02 Aug 2022 12:17:46: 13000000 INFO @ Tue, 02 Aug 2022 12:17:49: 27000000 INFO @ Tue, 02 Aug 2022 12:17:51: 21000000 INFO @ Tue, 02 Aug 2022 12:17:52: 14000000 INFO @ Tue, 02 Aug 2022 12:17:54: 28000000 INFO @ Tue, 02 Aug 2022 12:17:56: 22000000 INFO @ Tue, 02 Aug 2022 12:17:57: 15000000 INFO @ Tue, 02 Aug 2022 12:17:59: 29000000 INFO @ Tue, 02 Aug 2022 12:18:02: 23000000 INFO @ Tue, 02 Aug 2022 12:18:03: 16000000 INFO @ Tue, 02 Aug 2022 12:18:05: 30000000 INFO @ Tue, 02 Aug 2022 12:18:07: 24000000 INFO @ Tue, 02 Aug 2022 12:18:08: 17000000 INFO @ Tue, 02 Aug 2022 12:18:10: 31000000 INFO @ Tue, 02 Aug 2022 12:18:12: 25000000 INFO @ Tue, 02 Aug 2022 12:18:14: 18000000 INFO @ Tue, 02 Aug 2022 12:18:15: 32000000 INFO @ Tue, 02 Aug 2022 12:18:18: 26000000 INFO @ Tue, 02 Aug 2022 12:18:19: 19000000 INFO @ Tue, 02 Aug 2022 12:18:21: 33000000 INFO @ Tue, 02 Aug 2022 12:18:23: 27000000 INFO @ Tue, 02 Aug 2022 12:18:25: 20000000 INFO @ Tue, 02 Aug 2022 12:18:26: 34000000 INFO @ Tue, 02 Aug 2022 12:18:28: 28000000 INFO @ Tue, 02 Aug 2022 12:18:30: 21000000 INFO @ Tue, 02 Aug 2022 12:18:32: 35000000 INFO @ Tue, 02 Aug 2022 12:18:34: 29000000 INFO @ Tue, 02 Aug 2022 12:18:36: 22000000 INFO @ Tue, 02 Aug 2022 12:18:37: 36000000 INFO @ Tue, 02 Aug 2022 12:18:39: 30000000 INFO @ Tue, 02 Aug 2022 12:18:41: 23000000 INFO @ Tue, 02 Aug 2022 12:18:42: 37000000 INFO @ Tue, 02 Aug 2022 12:18:44: 31000000 INFO @ Tue, 02 Aug 2022 12:18:47: 24000000 INFO @ Tue, 02 Aug 2022 12:18:48: 38000000 INFO @ Tue, 02 Aug 2022 12:18:49: 32000000 INFO @ Tue, 02 Aug 2022 12:18:52: 25000000 INFO @ Tue, 02 Aug 2022 12:18:53: 39000000 INFO @ Tue, 02 Aug 2022 12:18:55: 33000000 INFO @ Tue, 02 Aug 2022 12:18:58: 26000000 INFO @ Tue, 02 Aug 2022 12:18:58: 40000000 INFO @ Tue, 02 Aug 2022 12:19:00: 34000000 INFO @ Tue, 02 Aug 2022 12:19:03: 27000000 INFO @ Tue, 02 Aug 2022 12:19:04: 41000000 INFO @ Tue, 02 Aug 2022 12:19:05: 35000000 INFO @ Tue, 02 Aug 2022 12:19:09: 28000000 INFO @ Tue, 02 Aug 2022 12:19:09: 42000000 INFO @ Tue, 02 Aug 2022 12:19:11: 36000000 INFO @ Tue, 02 Aug 2022 12:19:14: 29000000 INFO @ Tue, 02 Aug 2022 12:19:15: 43000000 INFO @ Tue, 02 Aug 2022 12:19:16: 37000000 INFO @ Tue, 02 Aug 2022 12:19:20: 30000000 INFO @ Tue, 02 Aug 2022 12:19:20: 44000000 INFO @ Tue, 02 Aug 2022 12:19:21: 38000000 INFO @ Tue, 02 Aug 2022 12:19:25: 31000000 INFO @ Tue, 02 Aug 2022 12:19:25: 45000000 INFO @ Tue, 02 Aug 2022 12:19:27: 39000000 INFO @ Tue, 02 Aug 2022 12:19:31: 32000000 INFO @ Tue, 02 Aug 2022 12:19:31: 46000000 INFO @ Tue, 02 Aug 2022 12:19:32: 40000000 INFO @ Tue, 02 Aug 2022 12:19:36: 47000000 INFO @ Tue, 02 Aug 2022 12:19:36: 33000000 INFO @ Tue, 02 Aug 2022 12:19:37: 41000000 INFO @ Tue, 02 Aug 2022 12:19:41: 48000000 INFO @ Tue, 02 Aug 2022 12:19:42: 34000000 INFO @ Tue, 02 Aug 2022 12:19:43: 42000000 INFO @ Tue, 02 Aug 2022 12:19:46: 49000000 INFO @ Tue, 02 Aug 2022 12:19:47: 35000000 INFO @ Tue, 02 Aug 2022 12:19:48: 43000000 INFO @ Tue, 02 Aug 2022 12:19:52: 50000000 INFO @ Tue, 02 Aug 2022 12:19:53: 36000000 INFO @ Tue, 02 Aug 2022 12:19:53: 44000000 INFO @ Tue, 02 Aug 2022 12:19:57: 51000000 INFO @ Tue, 02 Aug 2022 12:19:58: 37000000 INFO @ Tue, 02 Aug 2022 12:19:59: 45000000 INFO @ Tue, 02 Aug 2022 12:20:02: 52000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 12:20:04: 38000000 INFO @ Tue, 02 Aug 2022 12:20:04: 46000000 INFO @ Tue, 02 Aug 2022 12:20:08: 53000000 INFO @ Tue, 02 Aug 2022 12:20:09: 47000000 INFO @ Tue, 02 Aug 2022 12:20:09: 39000000 INFO @ Tue, 02 Aug 2022 12:20:13: 54000000 INFO @ Tue, 02 Aug 2022 12:20:14: 48000000 INFO @ Tue, 02 Aug 2022 12:20:15: 40000000 INFO @ Tue, 02 Aug 2022 12:20:18: 55000000 INFO @ Tue, 02 Aug 2022 12:20:20: 49000000 INFO @ Tue, 02 Aug 2022 12:20:20: 41000000 INFO @ Tue, 02 Aug 2022 12:20:23: 56000000 INFO @ Tue, 02 Aug 2022 12:20:25: 50000000 INFO @ Tue, 02 Aug 2022 12:20:26: 42000000 INFO @ Tue, 02 Aug 2022 12:20:29: 57000000 INFO @ Tue, 02 Aug 2022 12:20:30: 51000000 INFO @ Tue, 02 Aug 2022 12:20:32: 43000000 INFO @ Tue, 02 Aug 2022 12:20:34: 58000000 INFO @ Tue, 02 Aug 2022 12:20:36: 52000000 INFO @ Tue, 02 Aug 2022 12:20:37: 44000000 INFO @ Tue, 02 Aug 2022 12:20:39: 59000000 INFO @ Tue, 02 Aug 2022 12:20:41: 53000000 INFO @ Tue, 02 Aug 2022 12:20:43: 45000000 INFO @ Tue, 02 Aug 2022 12:20:44: 60000000 INFO @ Tue, 02 Aug 2022 12:20:46: 54000000 INFO @ Tue, 02 Aug 2022 12:20:48: 46000000 INFO @ Tue, 02 Aug 2022 12:20:50: 61000000 INFO @ Tue, 02 Aug 2022 12:20:51: 55000000 INFO @ Tue, 02 Aug 2022 12:20:54: 47000000 INFO @ Tue, 02 Aug 2022 12:20:55: 62000000 INFO @ Tue, 02 Aug 2022 12:20:55: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:20:55: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:20:55: #1 total tags in treatment: 24646765 INFO @ Tue, 02 Aug 2022 12:20:55: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:20:55: #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 12:20:56: #1 tags after filtering in treatment: 16819153 INFO @ Tue, 02 Aug 2022 12:20:56: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 12:20:56: #1 finished! INFO @ Tue, 02 Aug 2022 12:20:56: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:20:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:20:57: 56000000 INFO @ Tue, 02 Aug 2022 12:20:57: #2 number of paired peaks: 516 WARNING @ Tue, 02 Aug 2022 12:20:57: Fewer paired peaks (516) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 516 pairs to build model! INFO @ Tue, 02 Aug 2022 12:20:57: start model_add_line... INFO @ Tue, 02 Aug 2022 12:20:57: start X-correlation... INFO @ Tue, 02 Aug 2022 12:20:57: end of X-cor INFO @ Tue, 02 Aug 2022 12:20:57: #2 finished! INFO @ Tue, 02 Aug 2022 12:20:57: #2 predicted fragment length is 4 bps INFO @ Tue, 02 Aug 2022 12:20:57: #2 alternative fragment length(s) may be 4,12,27 bps INFO @ Tue, 02 Aug 2022 12:20:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05_model.r WARNING @ Tue, 02 Aug 2022 12:20:57: #2 Since the d (4) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:20:57: #2 You may need to consider one of the other alternative d(s): 4,12,27 WARNING @ Tue, 02 Aug 2022 12:20:57: #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 12:20:57: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:20:57: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:21:00: 48000000 INFO @ Tue, 02 Aug 2022 12:21:02: 57000000 INFO @ Tue, 02 Aug 2022 12:21:06: 49000000 INFO @ Tue, 02 Aug 2022 12:21:07: 58000000 INFO @ Tue, 02 Aug 2022 12:21:12: 59000000 INFO @ Tue, 02 Aug 2022 12:21:12: 50000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:21:17: 60000000 INFO @ Tue, 02 Aug 2022 12:21:18: 51000000 INFO @ Tue, 02 Aug 2022 12:21:22: 61000000 INFO @ Tue, 02 Aug 2022 12:21:24: 52000000 INFO @ Tue, 02 Aug 2022 12:21:25: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:21:27: 62000000 INFO @ Tue, 02 Aug 2022 12:21:28: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:21:28: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:21:28: #1 total tags in treatment: 24646765 INFO @ Tue, 02 Aug 2022 12:21:28: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:21:28: #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 12:21:28: #1 tags after filtering in treatment: 16819153 INFO @ Tue, 02 Aug 2022 12:21:28: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 12:21:28: #1 finished! INFO @ Tue, 02 Aug 2022 12:21:28: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:21:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:21:29: #2 number of paired peaks: 516 WARNING @ Tue, 02 Aug 2022 12:21:29: Fewer paired peaks (516) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 516 pairs to build model! INFO @ Tue, 02 Aug 2022 12:21:29: start model_add_line... INFO @ Tue, 02 Aug 2022 12:21:29: start X-correlation... INFO @ Tue, 02 Aug 2022 12:21:29: end of X-cor INFO @ Tue, 02 Aug 2022 12:21:29: #2 finished! INFO @ Tue, 02 Aug 2022 12:21:29: #2 predicted fragment length is 4 bps INFO @ Tue, 02 Aug 2022 12:21:29: #2 alternative fragment length(s) may be 4,12,27 bps INFO @ Tue, 02 Aug 2022 12:21:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10_model.r WARNING @ Tue, 02 Aug 2022 12:21:29: #2 Since the d (4) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:21:29: #2 You may need to consider one of the other alternative d(s): 4,12,27 WARNING @ Tue, 02 Aug 2022 12:21:29: #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 12:21:29: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:21:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:21:30: 53000000 INFO @ Tue, 02 Aug 2022 12:21:36: 54000000 INFO @ Tue, 02 Aug 2022 12:21:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:21:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:21:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.05_summits.bed INFO @ Tue, 02 Aug 2022 12:21:39: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:21:42: 55000000 INFO @ Tue, 02 Aug 2022 12:21:48: 56000000 INFO @ Tue, 02 Aug 2022 12:21:53: 57000000 INFO @ Tue, 02 Aug 2022 12:21:59: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:21:59: 58000000 INFO @ Tue, 02 Aug 2022 12:22:05: 59000000 INFO @ Tue, 02 Aug 2022 12:22:10: 60000000 INFO @ Tue, 02 Aug 2022 12:22:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:22:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:22:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.10_summits.bed INFO @ Tue, 02 Aug 2022 12:22:13: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 12:22:16: 61000000 INFO @ Tue, 02 Aug 2022 12:22:22: 62000000 INFO @ Tue, 02 Aug 2022 12:22:22: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:22:22: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:22:22: #1 total tags in treatment: 24646765 INFO @ Tue, 02 Aug 2022 12:22:22: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:22:22: #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 12:22:23: #1 tags after filtering in treatment: 16819153 INFO @ Tue, 02 Aug 2022 12:22:23: #1 Redundant rate of treatment: 0.32 INFO @ Tue, 02 Aug 2022 12:22:23: #1 finished! INFO @ Tue, 02 Aug 2022 12:22:23: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:22:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:22:24: #2 number of paired peaks: 516 WARNING @ Tue, 02 Aug 2022 12:22:24: Fewer paired peaks (516) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 516 pairs to build model! INFO @ Tue, 02 Aug 2022 12:22:24: start model_add_line... INFO @ Tue, 02 Aug 2022 12:22:24: start X-correlation... INFO @ Tue, 02 Aug 2022 12:22:24: end of X-cor INFO @ Tue, 02 Aug 2022 12:22:24: #2 finished! INFO @ Tue, 02 Aug 2022 12:22:24: #2 predicted fragment length is 4 bps INFO @ Tue, 02 Aug 2022 12:22:24: #2 alternative fragment length(s) may be 4,12,27 bps INFO @ Tue, 02 Aug 2022 12:22:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20_model.r WARNING @ Tue, 02 Aug 2022 12:22:24: #2 Since the d (4) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 12:22:24: #2 You may need to consider one of the other alternative d(s): 4,12,27 WARNING @ Tue, 02 Aug 2022 12:22:24: #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 12:22:24: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:22:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:22:54: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:23:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:23:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:23:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178891/SRX12178891.20_summits.bed INFO @ Tue, 02 Aug 2022 12:23:08: Done! pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling