Job ID = 6368859 SRX = SRX6619557 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-16T00:36:46 prefetch.2.10.7: 1) Downloading 'SRR9866052'... 2020-06-16T00:36:46 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:56:37 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:56:37 prefetch.2.10.7: 1) 'SRR9866052' was downloaded successfully 2020-06-16T00:56:37 prefetch.2.10.7: 'SRR9866052' has 0 unresolved dependencies Read 41642076 spots for SRR9866052/SRR9866052.sra Written 41642076 spots for SRR9866052/SRR9866052.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:19:05 41642076 reads; of these: 41642076 (100.00%) were paired; of these: 25442237 (61.10%) aligned concordantly 0 times 13340764 (32.04%) aligned concordantly exactly 1 time 2859075 (6.87%) aligned concordantly >1 times ---- 25442237 pairs aligned concordantly 0 times; of these: 13070384 (51.37%) aligned discordantly 1 time ---- 12371853 pairs aligned 0 times concordantly or discordantly; of these: 24743706 mates make up the pairs; of these: 21310471 (86.12%) aligned 0 times 1142167 (4.62%) aligned exactly 1 time 2291068 (9.26%) aligned >1 times 74.41% overall alignment rate Time searching: 01:19:05 Overall time: 01:19:05 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 48 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 4266906 / 28690871 = 0.1487 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 11:51:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 11:51:47: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:51:47: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:51:57: 1000000 INFO @ Tue, 16 Jun 2020 11:52:07: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 11:52:16: 3000000 INFO @ Tue, 16 Jun 2020 11:52:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 11:52:17: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:52:17: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:52:27: 4000000 INFO @ Tue, 16 Jun 2020 11:52:29: 1000000 INFO @ Tue, 16 Jun 2020 11:52:38: 5000000 INFO @ Tue, 16 Jun 2020 11:52:40: 2000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 16 Jun 2020 11:52:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.bam'] # control file = None # effective genome size = 9.00e+07 # 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, 16 Jun 2020 11:52:47: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:52:47: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:52:48: 6000000 INFO @ Tue, 16 Jun 2020 11:52:51: 3000000 INFO @ Tue, 16 Jun 2020 11:52:59: 1000000 INFO @ Tue, 16 Jun 2020 11:52:59: 7000000 INFO @ Tue, 16 Jun 2020 11:53:02: 4000000 INFO @ Tue, 16 Jun 2020 11:53:10: 2000000 INFO @ Tue, 16 Jun 2020 11:53:10: 8000000 INFO @ Tue, 16 Jun 2020 11:53:13: 5000000 INFO @ Tue, 16 Jun 2020 11:53:20: 9000000 INFO @ Tue, 16 Jun 2020 11:53:21: 3000000 INFO @ Tue, 16 Jun 2020 11:53:24: 6000000 INFO @ Tue, 16 Jun 2020 11:53:31: 10000000 INFO @ Tue, 16 Jun 2020 11:53:32: 4000000 INFO @ Tue, 16 Jun 2020 11:53:35: 7000000 INFO @ Tue, 16 Jun 2020 11:53:41: 11000000 INFO @ Tue, 16 Jun 2020 11:53:42: 5000000 INFO @ Tue, 16 Jun 2020 11:53:46: 8000000 INFO @ Tue, 16 Jun 2020 11:53:52: 12000000 INFO @ Tue, 16 Jun 2020 11:53:54: 6000000 INFO @ Tue, 16 Jun 2020 11:53:56: 9000000 INFO @ Tue, 16 Jun 2020 11:54:02: 13000000 INFO @ Tue, 16 Jun 2020 11:54:05: 7000000 INFO @ Tue, 16 Jun 2020 11:54:08: 10000000 INFO @ Tue, 16 Jun 2020 11:54:13: 14000000 INFO @ Tue, 16 Jun 2020 11:54:16: 8000000 INFO @ Tue, 16 Jun 2020 11:54:19: 11000000 INFO @ Tue, 16 Jun 2020 11:54:23: 15000000 INFO @ Tue, 16 Jun 2020 11:54:27: 9000000 INFO @ Tue, 16 Jun 2020 11:54:30: 12000000 INFO @ Tue, 16 Jun 2020 11:54:34: 16000000 INFO @ Tue, 16 Jun 2020 11:54:39: 10000000 INFO @ Tue, 16 Jun 2020 11:54:42: 13000000 INFO @ Tue, 16 Jun 2020 11:54:45: 17000000 INFO @ Tue, 16 Jun 2020 11:54:50: 11000000 INFO @ Tue, 16 Jun 2020 11:54:52: 14000000 INFO @ Tue, 16 Jun 2020 11:54:56: 18000000 INFO @ Tue, 16 Jun 2020 11:55:02: 12000000 INFO @ Tue, 16 Jun 2020 11:55:03: 15000000 INFO @ Tue, 16 Jun 2020 11:55:08: 19000000 INFO @ Tue, 16 Jun 2020 11:55:14: 16000000 INFO @ Tue, 16 Jun 2020 11:55:14: 13000000 INFO @ Tue, 16 Jun 2020 11:55:20: 20000000 INFO @ Tue, 16 Jun 2020 11:55:25: 17000000 INFO @ Tue, 16 Jun 2020 11:55:26: 14000000 INFO @ Tue, 16 Jun 2020 11:55:32: 21000000 INFO @ Tue, 16 Jun 2020 11:55:36: 18000000 INFO @ Tue, 16 Jun 2020 11:55:38: 15000000 INFO @ Tue, 16 Jun 2020 11:55:43: 22000000 INFO @ Tue, 16 Jun 2020 11:55:47: 19000000 INFO @ Tue, 16 Jun 2020 11:55:50: 16000000 INFO @ Tue, 16 Jun 2020 11:55:55: 23000000 INFO @ Tue, 16 Jun 2020 11:55:59: 20000000 INFO @ Tue, 16 Jun 2020 11:56:02: 17000000 INFO @ Tue, 16 Jun 2020 11:56:06: 24000000 INFO @ Tue, 16 Jun 2020 11:56:10: 21000000 INFO @ Tue, 16 Jun 2020 11:56:14: 18000000 INFO @ Tue, 16 Jun 2020 11:56:18: 25000000 INFO @ Tue, 16 Jun 2020 11:56:22: 22000000 INFO @ Tue, 16 Jun 2020 11:56:26: 19000000 INFO @ Tue, 16 Jun 2020 11:56:29: 26000000 INFO @ Tue, 16 Jun 2020 11:56:33: 23000000 INFO @ Tue, 16 Jun 2020 11:56:38: 20000000 INFO @ Tue, 16 Jun 2020 11:56:41: 27000000 INFO @ Tue, 16 Jun 2020 11:56:45: 24000000 INFO @ Tue, 16 Jun 2020 11:56:51: 21000000 INFO @ Tue, 16 Jun 2020 11:56:53: 28000000 INFO @ Tue, 16 Jun 2020 11:56:57: 25000000 INFO @ Tue, 16 Jun 2020 11:57:03: 22000000 INFO @ Tue, 16 Jun 2020 11:57:04: 29000000 INFO @ Tue, 16 Jun 2020 11:57:09: 26000000 INFO @ Tue, 16 Jun 2020 11:57:15: 23000000 INFO @ Tue, 16 Jun 2020 11:57:16: 30000000 INFO @ Tue, 16 Jun 2020 11:57:21: 27000000 INFO @ Tue, 16 Jun 2020 11:57:27: 24000000 INFO @ Tue, 16 Jun 2020 11:57:27: 31000000 INFO @ Tue, 16 Jun 2020 11:57:33: 28000000 INFO @ Tue, 16 Jun 2020 11:57:39: 25000000 INFO @ Tue, 16 Jun 2020 11:57:39: 32000000 INFO @ Tue, 16 Jun 2020 11:57:46: 29000000 INFO @ Tue, 16 Jun 2020 11:57:51: 33000000 INFO @ Tue, 16 Jun 2020 11:57:51: 26000000 INFO @ Tue, 16 Jun 2020 11:57:57: 30000000 INFO @ Tue, 16 Jun 2020 11:58:02: 34000000 INFO @ Tue, 16 Jun 2020 11:58:03: 27000000 INFO @ Tue, 16 Jun 2020 11:58:09: 31000000 INFO @ Tue, 16 Jun 2020 11:58:14: 35000000 INFO @ Tue, 16 Jun 2020 11:58:14: 28000000 INFO @ Tue, 16 Jun 2020 11:58:21: 32000000 INFO @ Tue, 16 Jun 2020 11:58:25: 36000000 INFO @ Tue, 16 Jun 2020 11:58:25: 29000000 INFO @ Tue, 16 Jun 2020 11:58:32: 33000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 11:58:36: 30000000 INFO @ Tue, 16 Jun 2020 11:58:37: 37000000 INFO @ Tue, 16 Jun 2020 11:58:43: 34000000 INFO @ Tue, 16 Jun 2020 11:58:47: 31000000 INFO @ Tue, 16 Jun 2020 11:58:48: 38000000 INFO @ Tue, 16 Jun 2020 11:58:55: 35000000 INFO @ Tue, 16 Jun 2020 11:58:58: 32000000 INFO @ Tue, 16 Jun 2020 11:59:00: 39000000 INFO @ Tue, 16 Jun 2020 11:59:06: 36000000 INFO @ Tue, 16 Jun 2020 11:59:10: 33000000 INFO @ Tue, 16 Jun 2020 11:59:11: 40000000 INFO @ Tue, 16 Jun 2020 11:59:17: 37000000 INFO @ Tue, 16 Jun 2020 11:59:20: 34000000 INFO @ Tue, 16 Jun 2020 11:59:22: 41000000 INFO @ Tue, 16 Jun 2020 11:59:28: 38000000 INFO @ Tue, 16 Jun 2020 11:59:31: 35000000 INFO @ Tue, 16 Jun 2020 11:59:33: 42000000 INFO @ Tue, 16 Jun 2020 11:59:40: 39000000 INFO @ Tue, 16 Jun 2020 11:59:42: 36000000 INFO @ Tue, 16 Jun 2020 11:59:45: 43000000 INFO @ Tue, 16 Jun 2020 11:59:50: 40000000 INFO @ Tue, 16 Jun 2020 11:59:52: 37000000 INFO @ Tue, 16 Jun 2020 11:59:56: 44000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 12:00:01: 41000000 INFO @ Tue, 16 Jun 2020 12:00:03: 38000000 INFO @ Tue, 16 Jun 2020 12:00:07: 45000000 INFO @ Tue, 16 Jun 2020 12:00:12: 42000000 INFO @ Tue, 16 Jun 2020 12:00:14: 39000000 INFO @ Tue, 16 Jun 2020 12:00:18: 46000000 INFO @ Tue, 16 Jun 2020 12:00:23: 43000000 INFO @ Tue, 16 Jun 2020 12:00:24: 40000000 INFO @ Tue, 16 Jun 2020 12:00:28: 47000000 INFO @ Tue, 16 Jun 2020 12:00:34: 44000000 INFO @ Tue, 16 Jun 2020 12:00:34: 41000000 INFO @ Tue, 16 Jun 2020 12:00:39: 48000000 INFO @ Tue, 16 Jun 2020 12:00:44: 42000000 INFO @ Tue, 16 Jun 2020 12:00:45: 45000000 INFO @ Tue, 16 Jun 2020 12:00:50: 49000000 INFO @ Tue, 16 Jun 2020 12:00:55: 43000000 INFO @ Tue, 16 Jun 2020 12:00:55: 46000000 INFO @ Tue, 16 Jun 2020 12:01:00: 50000000 INFO @ Tue, 16 Jun 2020 12:01:05: 44000000 INFO @ Tue, 16 Jun 2020 12:01:06: 47000000 INFO @ Tue, 16 Jun 2020 12:01:11: 51000000 INFO @ Tue, 16 Jun 2020 12:01:15: 45000000 INFO @ Tue, 16 Jun 2020 12:01:16: 48000000 INFO @ Tue, 16 Jun 2020 12:01:22: 52000000 INFO @ Tue, 16 Jun 2020 12:01:26: 46000000 INFO @ Tue, 16 Jun 2020 12:01:27: 49000000 INFO @ Tue, 16 Jun 2020 12:01:32: 53000000 INFO @ Tue, 16 Jun 2020 12:01:36: 47000000 INFO @ Tue, 16 Jun 2020 12:01:37: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:01:37: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:01:37: #1 total tags in treatment: 13579669 INFO @ Tue, 16 Jun 2020 12:01:37: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:01:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 12:01:37: #1 tags after filtering in treatment: 11370140 INFO @ Tue, 16 Jun 2020 12:01:37: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 16 Jun 2020 12:01:37: #1 finished! INFO @ Tue, 16 Jun 2020 12:01:37: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:01:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:01:37: 50000000 INFO @ Tue, 16 Jun 2020 12:01:38: #2 number of paired peaks: 278 WARNING @ Tue, 16 Jun 2020 12:01:38: Fewer paired peaks (278) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 278 pairs to build model! INFO @ Tue, 16 Jun 2020 12:01:38: start model_add_line... INFO @ Tue, 16 Jun 2020 12:01:38: start X-correlation... INFO @ Tue, 16 Jun 2020 12:01:38: end of X-cor INFO @ Tue, 16 Jun 2020 12:01:38: #2 finished! INFO @ Tue, 16 Jun 2020 12:01:38: #2 predicted fragment length is 213 bps INFO @ Tue, 16 Jun 2020 12:01:38: #2 alternative fragment length(s) may be 213 bps INFO @ Tue, 16 Jun 2020 12:01:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05_model.r WARNING @ Tue, 16 Jun 2020 12:01:38: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:01:38: #2 You may need to consider one of the other alternative d(s): 213 WARNING @ Tue, 16 Jun 2020 12:01:38: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 12:01:38: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:01:38: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:01:46: 48000000 INFO @ Tue, 16 Jun 2020 12:01:48: 51000000 INFO @ Tue, 16 Jun 2020 12:01:56: 49000000 INFO @ Tue, 16 Jun 2020 12:01:58: 52000000 INFO @ Tue, 16 Jun 2020 12:02:03: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:02:06: 50000000 INFO @ Tue, 16 Jun 2020 12:02:08: 53000000 INFO @ Tue, 16 Jun 2020 12:02:12: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:02:12: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:02:12: #1 total tags in treatment: 13579669 INFO @ Tue, 16 Jun 2020 12:02:12: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:02:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 12:02:12: #1 tags after filtering in treatment: 11370140 INFO @ Tue, 16 Jun 2020 12:02:12: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 16 Jun 2020 12:02:12: #1 finished! INFO @ Tue, 16 Jun 2020 12:02:12: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:02:12: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:02:13: #2 number of paired peaks: 278 WARNING @ Tue, 16 Jun 2020 12:02:13: Fewer paired peaks (278) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 278 pairs to build model! INFO @ Tue, 16 Jun 2020 12:02:13: start model_add_line... INFO @ Tue, 16 Jun 2020 12:02:13: start X-correlation... INFO @ Tue, 16 Jun 2020 12:02:13: end of X-cor INFO @ Tue, 16 Jun 2020 12:02:13: #2 finished! INFO @ Tue, 16 Jun 2020 12:02:13: #2 predicted fragment length is 213 bps INFO @ Tue, 16 Jun 2020 12:02:13: #2 alternative fragment length(s) may be 213 bps INFO @ Tue, 16 Jun 2020 12:02:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10_model.r WARNING @ Tue, 16 Jun 2020 12:02:13: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:02:13: #2 You may need to consider one of the other alternative d(s): 213 WARNING @ Tue, 16 Jun 2020 12:02:13: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 12:02:13: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:02:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:02:15: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05_peaks.xls INFO @ Tue, 16 Jun 2020 12:02:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:02:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.05_summits.bed INFO @ Tue, 16 Jun 2020 12:02:15: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (524 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 12:02:16: 51000000 INFO @ Tue, 16 Jun 2020 12:02:26: 52000000 INFO @ Tue, 16 Jun 2020 12:02:36: 53000000 INFO @ Tue, 16 Jun 2020 12:02:38: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:02:40: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:02:40: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:02:40: #1 total tags in treatment: 13579669 INFO @ Tue, 16 Jun 2020 12:02:40: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:02:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 12:02:40: #1 tags after filtering in treatment: 11370140 INFO @ Tue, 16 Jun 2020 12:02:40: #1 Redundant rate of treatment: 0.16 INFO @ Tue, 16 Jun 2020 12:02:40: #1 finished! INFO @ Tue, 16 Jun 2020 12:02:40: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:02:40: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:02:41: #2 number of paired peaks: 278 WARNING @ Tue, 16 Jun 2020 12:02:41: Fewer paired peaks (278) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 278 pairs to build model! INFO @ Tue, 16 Jun 2020 12:02:41: start model_add_line... INFO @ Tue, 16 Jun 2020 12:02:41: start X-correlation... INFO @ Tue, 16 Jun 2020 12:02:41: end of X-cor INFO @ Tue, 16 Jun 2020 12:02:41: #2 finished! INFO @ Tue, 16 Jun 2020 12:02:41: #2 predicted fragment length is 213 bps INFO @ Tue, 16 Jun 2020 12:02:41: #2 alternative fragment length(s) may be 213 bps INFO @ Tue, 16 Jun 2020 12:02:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20_model.r WARNING @ Tue, 16 Jun 2020 12:02:41: #2 Since the d (213) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:02:41: #2 You may need to consider one of the other alternative d(s): 213 WARNING @ Tue, 16 Jun 2020 12:02:41: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 16 Jun 2020 12:02:41: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:02:41: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:02:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10_peaks.xls INFO @ Tue, 16 Jun 2020 12:02:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:02:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.10_summits.bed INFO @ Tue, 16 Jun 2020 12:02:49: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (356 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 12:03:05: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:03:16: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20_peaks.xls INFO @ Tue, 16 Jun 2020 12:03:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:03:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619557/SRX6619557.20_summits.bed INFO @ Tue, 16 Jun 2020 12:03:16: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (221 records, 4 fields): 1 millis CompletedMACS2peakCalling