Job ID = 16440678 SRX = SRX12178846 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-08-02T08:45:36 prefetch.2.10.7: 1) Downloading 'SRR15888068'... 2022-08-02T08:45:36 prefetch.2.10.7: Downloading via HTTPS... 2022-08-02T08:48:04 prefetch.2.10.7: HTTPS download succeed 2022-08-02T08:48:04 prefetch.2.10.7: 1) 'SRR15888068' was downloaded successfully 2022-08-02T08:48:04 prefetch.2.10.7: 'SRR15888068' has 0 unresolved dependencies Read 44036223 spots for SRR15888068/SRR15888068.sra Written 44036223 spots for SRR15888068/SRR15888068.sra fastq に変換しました。 bowtie でマッピング中... Your job 16441103 ("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: 00:41:01 44036223 reads; of these: 44036223 (100.00%) were paired; of these: 14459589 (32.84%) aligned concordantly 0 times 25698954 (58.36%) aligned concordantly exactly 1 time 3877680 (8.81%) aligned concordantly >1 times ---- 14459589 pairs aligned concordantly 0 times; of these: 5534104 (38.27%) aligned discordantly 1 time ---- 8925485 pairs aligned 0 times concordantly or discordantly; of these: 17850970 mates make up the pairs; of these: 10501098 (58.83%) aligned 0 times 5556428 (31.13%) aligned exactly 1 time 1793444 (10.05%) aligned >1 times 88.08% overall alignment rate Time searching: 00:41:01 Overall time: 00:41:01 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] 6083249 / 35022455 = 0.1737 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 18:50:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.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 18:50:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:50:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:50:29: 1000000 INFO @ Tue, 02 Aug 2022 18:50:35: 2000000 INFO @ Tue, 02 Aug 2022 18:50:40: 3000000 INFO @ Tue, 02 Aug 2022 18:50:46: 4000000 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 18:50:51: 5000000 INFO @ Tue, 02 Aug 2022 18:50:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.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 18:50:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:50:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:50:58: 6000000 INFO @ Tue, 02 Aug 2022 18:50:59: 1000000 INFO @ Tue, 02 Aug 2022 18:51:04: 7000000 INFO @ Tue, 02 Aug 2022 18:51:05: 2000000 INFO @ Tue, 02 Aug 2022 18:51:10: 8000000 INFO @ Tue, 02 Aug 2022 18:51:11: 3000000 INFO @ Tue, 02 Aug 2022 18:51:16: 4000000 INFO @ Tue, 02 Aug 2022 18:51:17: 9000000 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 18:51:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.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 18:51:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 18:51:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 18:51:23: 5000000 INFO @ Tue, 02 Aug 2022 18:51:24: 10000000 INFO @ Tue, 02 Aug 2022 18:51:28: 1000000 INFO @ Tue, 02 Aug 2022 18:51:29: 6000000 INFO @ Tue, 02 Aug 2022 18:51:30: 11000000 INFO @ Tue, 02 Aug 2022 18:51:35: 2000000 INFO @ Tue, 02 Aug 2022 18:51:35: 7000000 INFO @ Tue, 02 Aug 2022 18:51:37: 12000000 INFO @ Tue, 02 Aug 2022 18:51:41: 3000000 INFO @ Tue, 02 Aug 2022 18:51:42: 8000000 INFO @ Tue, 02 Aug 2022 18:51:43: 13000000 INFO @ Tue, 02 Aug 2022 18:51:47: 4000000 INFO @ Tue, 02 Aug 2022 18:51:48: 9000000 INFO @ Tue, 02 Aug 2022 18:51:49: 14000000 INFO @ Tue, 02 Aug 2022 18:51:53: 5000000 INFO @ Tue, 02 Aug 2022 18:51:54: 10000000 INFO @ Tue, 02 Aug 2022 18:51:55: 15000000 INFO @ Tue, 02 Aug 2022 18:52:00: 6000000 INFO @ Tue, 02 Aug 2022 18:52:01: 11000000 INFO @ Tue, 02 Aug 2022 18:52:01: 16000000 INFO @ Tue, 02 Aug 2022 18:52:06: 7000000 INFO @ Tue, 02 Aug 2022 18:52:07: 17000000 INFO @ Tue, 02 Aug 2022 18:52:07: 12000000 INFO @ Tue, 02 Aug 2022 18:52:13: 8000000 INFO @ Tue, 02 Aug 2022 18:52:13: 18000000 INFO @ Tue, 02 Aug 2022 18:52:13: 13000000 INFO @ Tue, 02 Aug 2022 18:52:19: 9000000 INFO @ Tue, 02 Aug 2022 18:52:19: 19000000 INFO @ Tue, 02 Aug 2022 18:52:20: 14000000 INFO @ Tue, 02 Aug 2022 18:52:25: 20000000 INFO @ Tue, 02 Aug 2022 18:52:25: 10000000 INFO @ Tue, 02 Aug 2022 18:52:26: 15000000 INFO @ Tue, 02 Aug 2022 18:52:31: 21000000 INFO @ Tue, 02 Aug 2022 18:52:32: 11000000 INFO @ Tue, 02 Aug 2022 18:52:33: 16000000 INFO @ Tue, 02 Aug 2022 18:52:37: 22000000 INFO @ Tue, 02 Aug 2022 18:52:38: 12000000 INFO @ Tue, 02 Aug 2022 18:52:39: 17000000 INFO @ Tue, 02 Aug 2022 18:52:43: 23000000 INFO @ Tue, 02 Aug 2022 18:52:44: 13000000 INFO @ Tue, 02 Aug 2022 18:52:45: 18000000 INFO @ Tue, 02 Aug 2022 18:52:49: 24000000 INFO @ Tue, 02 Aug 2022 18:52:51: 14000000 INFO @ Tue, 02 Aug 2022 18:52:52: 19000000 INFO @ Tue, 02 Aug 2022 18:52:55: 25000000 INFO @ Tue, 02 Aug 2022 18:52:57: 15000000 INFO @ Tue, 02 Aug 2022 18:52:58: 20000000 INFO @ Tue, 02 Aug 2022 18:53:01: 26000000 INFO @ Tue, 02 Aug 2022 18:53:04: 16000000 INFO @ Tue, 02 Aug 2022 18:53:04: 21000000 INFO @ Tue, 02 Aug 2022 18:53:07: 27000000 INFO @ Tue, 02 Aug 2022 18:53:10: 17000000 INFO @ Tue, 02 Aug 2022 18:53:11: 22000000 INFO @ Tue, 02 Aug 2022 18:53:13: 28000000 INFO @ Tue, 02 Aug 2022 18:53:16: 18000000 INFO @ Tue, 02 Aug 2022 18:53:17: 23000000 INFO @ Tue, 02 Aug 2022 18:53:19: 29000000 INFO @ Tue, 02 Aug 2022 18:53:23: 19000000 INFO @ Tue, 02 Aug 2022 18:53:23: 24000000 INFO @ Tue, 02 Aug 2022 18:53:25: 30000000 INFO @ Tue, 02 Aug 2022 18:53:29: 20000000 INFO @ Tue, 02 Aug 2022 18:53:30: 25000000 INFO @ Tue, 02 Aug 2022 18:53:31: 31000000 INFO @ Tue, 02 Aug 2022 18:53:35: 21000000 INFO @ Tue, 02 Aug 2022 18:53:36: 26000000 INFO @ Tue, 02 Aug 2022 18:53:37: 32000000 INFO @ Tue, 02 Aug 2022 18:53:42: 22000000 INFO @ Tue, 02 Aug 2022 18:53:43: 27000000 INFO @ Tue, 02 Aug 2022 18:53:43: 33000000 INFO @ Tue, 02 Aug 2022 18:53:48: 23000000 INFO @ Tue, 02 Aug 2022 18:53:49: 28000000 INFO @ Tue, 02 Aug 2022 18:53:49: 34000000 INFO @ Tue, 02 Aug 2022 18:53:55: 24000000 INFO @ Tue, 02 Aug 2022 18:53:55: 29000000 INFO @ Tue, 02 Aug 2022 18:53:55: 35000000 INFO @ Tue, 02 Aug 2022 18:54:01: 25000000 INFO @ Tue, 02 Aug 2022 18:54:01: 36000000 INFO @ Tue, 02 Aug 2022 18:54:02: 30000000 INFO @ Tue, 02 Aug 2022 18:54:07: 26000000 INFO @ Tue, 02 Aug 2022 18:54:08: 37000000 INFO @ Tue, 02 Aug 2022 18:54:08: 31000000 INFO @ Tue, 02 Aug 2022 18:54:14: 38000000 INFO @ Tue, 02 Aug 2022 18:54:14: 27000000 INFO @ Tue, 02 Aug 2022 18:54:14: 32000000 INFO @ Tue, 02 Aug 2022 18:54:20: 39000000 INFO @ Tue, 02 Aug 2022 18:54:20: 28000000 INFO @ Tue, 02 Aug 2022 18:54:21: 33000000 INFO @ Tue, 02 Aug 2022 18:54:26: 40000000 INFO @ Tue, 02 Aug 2022 18:54:26: 29000000 INFO @ Tue, 02 Aug 2022 18:54:27: 34000000 INFO @ Tue, 02 Aug 2022 18:54:32: 41000000 INFO @ Tue, 02 Aug 2022 18:54:33: 30000000 INFO @ Tue, 02 Aug 2022 18:54:33: 35000000 INFO @ Tue, 02 Aug 2022 18:54:38: 42000000 INFO @ Tue, 02 Aug 2022 18:54:39: 31000000 INFO @ Tue, 02 Aug 2022 18:54:40: 36000000 INFO @ Tue, 02 Aug 2022 18:54:44: 43000000 INFO @ Tue, 02 Aug 2022 18:54:46: 32000000 INFO @ Tue, 02 Aug 2022 18:54:46: 37000000 INFO @ Tue, 02 Aug 2022 18:54:50: 44000000 INFO @ Tue, 02 Aug 2022 18:54:52: 33000000 INFO @ Tue, 02 Aug 2022 18:54:52: 38000000 INFO @ Tue, 02 Aug 2022 18:54:56: 45000000 INFO @ Tue, 02 Aug 2022 18:54:58: 34000000 INFO @ Tue, 02 Aug 2022 18:54:59: 39000000 INFO @ Tue, 02 Aug 2022 18:55:02: 46000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 18:55:05: 35000000 INFO @ Tue, 02 Aug 2022 18:55:05: 40000000 INFO @ Tue, 02 Aug 2022 18:55:08: 47000000 INFO @ Tue, 02 Aug 2022 18:55:11: 36000000 INFO @ Tue, 02 Aug 2022 18:55:11: 41000000 INFO @ Tue, 02 Aug 2022 18:55:14: 48000000 INFO @ Tue, 02 Aug 2022 18:55:17: 37000000 INFO @ Tue, 02 Aug 2022 18:55:18: 42000000 INFO @ Tue, 02 Aug 2022 18:55:20: 49000000 INFO @ Tue, 02 Aug 2022 18:55:24: 38000000 INFO @ Tue, 02 Aug 2022 18:55:24: 43000000 INFO @ Tue, 02 Aug 2022 18:55:26: 50000000 INFO @ Tue, 02 Aug 2022 18:55:30: 39000000 INFO @ Tue, 02 Aug 2022 18:55:30: 44000000 INFO @ Tue, 02 Aug 2022 18:55:32: 51000000 INFO @ Tue, 02 Aug 2022 18:55:36: 40000000 INFO @ Tue, 02 Aug 2022 18:55:37: 45000000 INFO @ Tue, 02 Aug 2022 18:55:38: 52000000 INFO @ Tue, 02 Aug 2022 18:55:43: 41000000 INFO @ Tue, 02 Aug 2022 18:55:43: 46000000 INFO @ Tue, 02 Aug 2022 18:55:44: 53000000 INFO @ Tue, 02 Aug 2022 18:55:49: 42000000 INFO @ Tue, 02 Aug 2022 18:55:49: 47000000 INFO @ Tue, 02 Aug 2022 18:55:50: 54000000 INFO @ Tue, 02 Aug 2022 18:55:55: 43000000 INFO @ Tue, 02 Aug 2022 18:55:56: 48000000 INFO @ Tue, 02 Aug 2022 18:55:56: 55000000 INFO @ Tue, 02 Aug 2022 18:56:02: 44000000 INFO @ Tue, 02 Aug 2022 18:56:02: 49000000 INFO @ Tue, 02 Aug 2022 18:56:02: 56000000 INFO @ Tue, 02 Aug 2022 18:56:08: 45000000 INFO @ Tue, 02 Aug 2022 18:56:08: 50000000 INFO @ Tue, 02 Aug 2022 18:56:08: 57000000 INFO @ Tue, 02 Aug 2022 18:56:14: 46000000 INFO @ Tue, 02 Aug 2022 18:56:15: 58000000 INFO @ Tue, 02 Aug 2022 18:56:15: 51000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 18:56:21: 59000000 INFO @ Tue, 02 Aug 2022 18:56:21: 47000000 INFO @ Tue, 02 Aug 2022 18:56:21: 52000000 INFO @ Tue, 02 Aug 2022 18:56:27: 60000000 INFO @ Tue, 02 Aug 2022 18:56:27: 48000000 INFO @ Tue, 02 Aug 2022 18:56:28: 53000000 INFO @ Tue, 02 Aug 2022 18:56:33: 61000000 INFO @ Tue, 02 Aug 2022 18:56:33: 49000000 INFO @ Tue, 02 Aug 2022 18:56:34: 54000000 INFO @ Tue, 02 Aug 2022 18:56:39: 62000000 INFO @ Tue, 02 Aug 2022 18:56:40: 50000000 INFO @ Tue, 02 Aug 2022 18:56:41: 55000000 INFO @ Tue, 02 Aug 2022 18:56:45: 63000000 INFO @ Tue, 02 Aug 2022 18:56:46: 51000000 INFO @ Tue, 02 Aug 2022 18:56:47: 56000000 INFO @ Tue, 02 Aug 2022 18:56:51: 64000000 INFO @ Tue, 02 Aug 2022 18:56:53: 52000000 INFO @ Tue, 02 Aug 2022 18:56:54: 57000000 INFO @ Tue, 02 Aug 2022 18:56:57: 65000000 INFO @ Tue, 02 Aug 2022 18:56:59: 53000000 INFO @ Tue, 02 Aug 2022 18:57:00: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:57:00: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:57:00: #1 total tags in treatment: 24135513 INFO @ Tue, 02 Aug 2022 18:57:00: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:57:00: #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 18:57:00: 58000000 INFO @ Tue, 02 Aug 2022 18:57:00: #1 tags after filtering in treatment: 16093684 INFO @ Tue, 02 Aug 2022 18:57:00: #1 Redundant rate of treatment: 0.33 INFO @ Tue, 02 Aug 2022 18:57:00: #1 finished! INFO @ Tue, 02 Aug 2022 18:57:00: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:57:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:57:01: #2 number of paired peaks: 654 WARNING @ Tue, 02 Aug 2022 18:57:01: Fewer paired peaks (654) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 654 pairs to build model! INFO @ Tue, 02 Aug 2022 18:57:01: start model_add_line... INFO @ Tue, 02 Aug 2022 18:57:01: start X-correlation... INFO @ Tue, 02 Aug 2022 18:57:02: end of X-cor INFO @ Tue, 02 Aug 2022 18:57:02: #2 finished! INFO @ Tue, 02 Aug 2022 18:57:02: #2 predicted fragment length is 54 bps INFO @ Tue, 02 Aug 2022 18:57:02: #2 alternative fragment length(s) may be 4,13,54 bps INFO @ Tue, 02 Aug 2022 18:57:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05_model.r WARNING @ Tue, 02 Aug 2022 18:57:02: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:57:02: #2 You may need to consider one of the other alternative d(s): 4,13,54 WARNING @ Tue, 02 Aug 2022 18:57:02: #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 18:57:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:57:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:57:05: 54000000 INFO @ Tue, 02 Aug 2022 18:57:06: 59000000 INFO @ Tue, 02 Aug 2022 18:57:12: 55000000 INFO @ Tue, 02 Aug 2022 18:57:13: 60000000 INFO @ Tue, 02 Aug 2022 18:57:18: 56000000 INFO @ Tue, 02 Aug 2022 18:57:19: 61000000 INFO @ Tue, 02 Aug 2022 18:57:25: 57000000 INFO @ Tue, 02 Aug 2022 18:57:25: 62000000 INFO @ Tue, 02 Aug 2022 18:57:31: 58000000 INFO @ Tue, 02 Aug 2022 18:57:31: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:57:32: 63000000 INFO @ Tue, 02 Aug 2022 18:57:37: 59000000 INFO @ Tue, 02 Aug 2022 18:57:38: 64000000 INFO @ Tue, 02 Aug 2022 18:57:44: 60000000 INFO @ Tue, 02 Aug 2022 18:57:44: 65000000 INFO @ Tue, 02 Aug 2022 18:57:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05_peaks.xls INFO @ Tue, 02 Aug 2022 18:57:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:57:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.05_summits.bed INFO @ Tue, 02 Aug 2022 18:57:47: Done! INFO @ Tue, 02 Aug 2022 18:57:47: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:57:47: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:57:47: #1 total tags in treatment: 24135513 INFO @ Tue, 02 Aug 2022 18:57:47: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:57:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) pass1 - making usageList (15 chroms): 3 millis INFO @ Tue, 02 Aug 2022 18:57:47: #1 tags after filtering in treatment: 16093684 INFO @ Tue, 02 Aug 2022 18:57:47: #1 Redundant rate of treatment: 0.33 INFO @ Tue, 02 Aug 2022 18:57:47: #1 finished! INFO @ Tue, 02 Aug 2022 18:57:47: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:57:47: #2 looking for paired plus/minus strand peaks... pass2 - checking and writing primary data (18397 records, 4 fields): 202 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:57:48: #2 number of paired peaks: 654 WARNING @ Tue, 02 Aug 2022 18:57:48: Fewer paired peaks (654) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 654 pairs to build model! INFO @ Tue, 02 Aug 2022 18:57:48: start model_add_line... INFO @ Tue, 02 Aug 2022 18:57:48: start X-correlation... INFO @ Tue, 02 Aug 2022 18:57:48: end of X-cor INFO @ Tue, 02 Aug 2022 18:57:48: #2 finished! INFO @ Tue, 02 Aug 2022 18:57:48: #2 predicted fragment length is 54 bps INFO @ Tue, 02 Aug 2022 18:57:48: #2 alternative fragment length(s) may be 4,13,54 bps INFO @ Tue, 02 Aug 2022 18:57:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10_model.r WARNING @ Tue, 02 Aug 2022 18:57:48: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:57:48: #2 You may need to consider one of the other alternative d(s): 4,13,54 WARNING @ Tue, 02 Aug 2022 18:57:48: #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 18:57:48: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:57:48: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:57:50: 61000000 INFO @ Tue, 02 Aug 2022 18:57:56: 62000000 INFO @ Tue, 02 Aug 2022 18:58:01: 63000000 INFO @ Tue, 02 Aug 2022 18:58:07: 64000000 INFO @ Tue, 02 Aug 2022 18:58:13: 65000000 INFO @ Tue, 02 Aug 2022 18:58:16: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 18:58:16: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 18:58:16: #1 total tags in treatment: 24135513 INFO @ Tue, 02 Aug 2022 18:58:16: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 18:58:16: #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 18:58:16: #1 tags after filtering in treatment: 16093684 INFO @ Tue, 02 Aug 2022 18:58:16: #1 Redundant rate of treatment: 0.33 INFO @ Tue, 02 Aug 2022 18:58:16: #1 finished! INFO @ Tue, 02 Aug 2022 18:58:16: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 18:58:16: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 18:58:16: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:58:17: #2 number of paired peaks: 654 WARNING @ Tue, 02 Aug 2022 18:58:17: Fewer paired peaks (654) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 654 pairs to build model! INFO @ Tue, 02 Aug 2022 18:58:17: start model_add_line... INFO @ Tue, 02 Aug 2022 18:58:17: start X-correlation... INFO @ Tue, 02 Aug 2022 18:58:17: end of X-cor INFO @ Tue, 02 Aug 2022 18:58:17: #2 finished! INFO @ Tue, 02 Aug 2022 18:58:17: #2 predicted fragment length is 54 bps INFO @ Tue, 02 Aug 2022 18:58:17: #2 alternative fragment length(s) may be 4,13,54 bps INFO @ Tue, 02 Aug 2022 18:58:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20_model.r WARNING @ Tue, 02 Aug 2022 18:58:17: #2 Since the d (54) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 02 Aug 2022 18:58:17: #2 You may need to consider one of the other alternative d(s): 4,13,54 WARNING @ Tue, 02 Aug 2022 18:58:17: #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 18:58:17: #3 Call peaks... INFO @ Tue, 02 Aug 2022 18:58:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 18:58:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10_peaks.xls INFO @ Tue, 02 Aug 2022 18:58:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:58:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.10_summits.bed INFO @ Tue, 02 Aug 2022 18:58:31: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (7206 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 18:58:46: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 18:59:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20_peaks.xls INFO @ Tue, 02 Aug 2022 18:59:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 18:59:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX12178846/SRX12178846.20_summits.bed INFO @ Tue, 02 Aug 2022 18:59:01: Done! pass1 - making usageList (11 chroms): 0 millis pass2 - checking and writing primary data (316 records, 4 fields): 2 millis CompletedMACS2peakCalling