Job ID = 6368893 SRX = SRX6619595 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-16T00:40:59 prefetch.2.10.7: 1) Downloading 'SRR9866013'... 2020-06-16T00:40:59 prefetch.2.10.7: Downloading via HTTPS... 2020-06-16T00:59:22 prefetch.2.10.7: HTTPS download succeed 2020-06-16T00:59:22 prefetch.2.10.7: 1) 'SRR9866013' was downloaded successfully 2020-06-16T00:59:22 prefetch.2.10.7: 'SRR9866013' has 0 unresolved dependencies Read 39367573 spots for SRR9866013/SRR9866013.sra Written 39367573 spots for SRR9866013/SRR9866013.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: 01:16:40 39367573 reads; of these: 39367573 (100.00%) were paired; of these: 21966027 (55.80%) aligned concordantly 0 times 14503052 (36.84%) aligned concordantly exactly 1 time 2898494 (7.36%) aligned concordantly >1 times ---- 21966027 pairs aligned concordantly 0 times; of these: 10440231 (47.53%) aligned discordantly 1 time ---- 11525796 pairs aligned 0 times concordantly or discordantly; of these: 23051592 mates make up the pairs; of these: 18672652 (81.00%) aligned 0 times 2172876 (9.43%) aligned exactly 1 time 2206064 (9.57%) aligned >1 times 76.28% overall alignment rate Time searching: 01:16:40 Overall time: 01:16:40 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 44 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] 3619005 / 26916168 = 0.1345 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 11:51:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.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 11:51:51: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:51:51: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:52:01: 1000000 INFO @ Tue, 16 Jun 2020 11:52:10: 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 11:52:19: 3000000 INFO @ Tue, 16 Jun 2020 11:52:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.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 11:52:21: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:52:21: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:52:30: 4000000 INFO @ Tue, 16 Jun 2020 11:52:31: 1000000 INFO @ Tue, 16 Jun 2020 11:52:41: 5000000 INFO @ Tue, 16 Jun 2020 11:52:42: 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 11:52:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.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 11:52:51: #1 read tag files... INFO @ Tue, 16 Jun 2020 11:52:51: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 11:52:52: 6000000 INFO @ Tue, 16 Jun 2020 11:52:53: 3000000 INFO @ Tue, 16 Jun 2020 11:53:02: 1000000 INFO @ Tue, 16 Jun 2020 11:53:03: 7000000 INFO @ Tue, 16 Jun 2020 11:53:04: 4000000 INFO @ Tue, 16 Jun 2020 11:53:12: 2000000 INFO @ Tue, 16 Jun 2020 11:53:13: 8000000 INFO @ Tue, 16 Jun 2020 11:53:14: 5000000 INFO @ Tue, 16 Jun 2020 11:53:24: 3000000 INFO @ Tue, 16 Jun 2020 11:53:24: 9000000 INFO @ Tue, 16 Jun 2020 11:53:25: 6000000 INFO @ Tue, 16 Jun 2020 11:53:34: 4000000 INFO @ Tue, 16 Jun 2020 11:53:35: 10000000 INFO @ Tue, 16 Jun 2020 11:53:36: 7000000 INFO @ Tue, 16 Jun 2020 11:53:45: 5000000 INFO @ Tue, 16 Jun 2020 11:53:46: 11000000 INFO @ Tue, 16 Jun 2020 11:53:46: 8000000 INFO @ Tue, 16 Jun 2020 11:53:56: 6000000 INFO @ Tue, 16 Jun 2020 11:53:57: 12000000 INFO @ Tue, 16 Jun 2020 11:53:57: 9000000 INFO @ Tue, 16 Jun 2020 11:54:07: 7000000 INFO @ Tue, 16 Jun 2020 11:54:07: 10000000 INFO @ Tue, 16 Jun 2020 11:54:08: 13000000 INFO @ Tue, 16 Jun 2020 11:54:17: 8000000 INFO @ Tue, 16 Jun 2020 11:54:18: 11000000 INFO @ Tue, 16 Jun 2020 11:54:19: 14000000 INFO @ Tue, 16 Jun 2020 11:54:28: 9000000 INFO @ Tue, 16 Jun 2020 11:54:29: 12000000 INFO @ Tue, 16 Jun 2020 11:54:30: 15000000 INFO @ Tue, 16 Jun 2020 11:54:39: 10000000 INFO @ Tue, 16 Jun 2020 11:54:39: 13000000 INFO @ Tue, 16 Jun 2020 11:54:41: 16000000 INFO @ Tue, 16 Jun 2020 11:54:50: 14000000 INFO @ Tue, 16 Jun 2020 11:54:51: 11000000 INFO @ Tue, 16 Jun 2020 11:54:52: 17000000 INFO @ Tue, 16 Jun 2020 11:55:01: 15000000 INFO @ Tue, 16 Jun 2020 11:55:02: 12000000 INFO @ Tue, 16 Jun 2020 11:55:04: 18000000 INFO @ Tue, 16 Jun 2020 11:55:12: 16000000 INFO @ Tue, 16 Jun 2020 11:55:13: 13000000 INFO @ Tue, 16 Jun 2020 11:55:15: 19000000 INFO @ Tue, 16 Jun 2020 11:55:23: 17000000 INFO @ Tue, 16 Jun 2020 11:55:24: 14000000 INFO @ Tue, 16 Jun 2020 11:55:26: 20000000 INFO @ Tue, 16 Jun 2020 11:55:34: 18000000 INFO @ Tue, 16 Jun 2020 11:55:36: 15000000 INFO @ Tue, 16 Jun 2020 11:55:37: 21000000 INFO @ Tue, 16 Jun 2020 11:55:45: 19000000 INFO @ Tue, 16 Jun 2020 11:55:47: 16000000 INFO @ Tue, 16 Jun 2020 11:55:48: 22000000 INFO @ Tue, 16 Jun 2020 11:55:56: 20000000 INFO @ Tue, 16 Jun 2020 11:55:58: 17000000 INFO @ Tue, 16 Jun 2020 11:55:59: 23000000 INFO @ Tue, 16 Jun 2020 11:56:07: 21000000 INFO @ Tue, 16 Jun 2020 11:56:09: 18000000 INFO @ Tue, 16 Jun 2020 11:56:10: 24000000 INFO @ Tue, 16 Jun 2020 11:56:18: 22000000 INFO @ Tue, 16 Jun 2020 11:56:20: 19000000 INFO @ Tue, 16 Jun 2020 11:56:21: 25000000 INFO @ Tue, 16 Jun 2020 11:56:29: 23000000 INFO @ Tue, 16 Jun 2020 11:56:31: 20000000 INFO @ Tue, 16 Jun 2020 11:56:32: 26000000 INFO @ Tue, 16 Jun 2020 11:56:40: 24000000 INFO @ Tue, 16 Jun 2020 11:56:42: 21000000 INFO @ Tue, 16 Jun 2020 11:56:43: 27000000 INFO @ Tue, 16 Jun 2020 11:56:51: 25000000 INFO @ Tue, 16 Jun 2020 11:56:53: 22000000 INFO @ Tue, 16 Jun 2020 11:56:55: 28000000 INFO @ Tue, 16 Jun 2020 11:57:02: 26000000 INFO @ Tue, 16 Jun 2020 11:57:05: 23000000 INFO @ Tue, 16 Jun 2020 11:57:06: 29000000 INFO @ Tue, 16 Jun 2020 11:57:13: 27000000 INFO @ Tue, 16 Jun 2020 11:57:16: 24000000 INFO @ Tue, 16 Jun 2020 11:57:17: 30000000 INFO @ Tue, 16 Jun 2020 11:57:24: 28000000 INFO @ Tue, 16 Jun 2020 11:57:27: 25000000 INFO @ Tue, 16 Jun 2020 11:57:28: 31000000 INFO @ Tue, 16 Jun 2020 11:57:35: 29000000 INFO @ Tue, 16 Jun 2020 11:57:38: 26000000 INFO @ Tue, 16 Jun 2020 11:57:39: 32000000 INFO @ Tue, 16 Jun 2020 11:57:46: 30000000 INFO @ Tue, 16 Jun 2020 11:57:49: 27000000 INFO @ Tue, 16 Jun 2020 11:57:50: 33000000 INFO @ Tue, 16 Jun 2020 11:57:57: 31000000 INFO @ Tue, 16 Jun 2020 11:58:00: 28000000 INFO @ Tue, 16 Jun 2020 11:58:01: 34000000 INFO @ Tue, 16 Jun 2020 11:58:07: 32000000 INFO @ Tue, 16 Jun 2020 11:58:11: 29000000 INFO @ Tue, 16 Jun 2020 11:58:12: 35000000 INFO @ Tue, 16 Jun 2020 11:58:18: 33000000 INFO @ Tue, 16 Jun 2020 11:58:22: 30000000 INFO @ Tue, 16 Jun 2020 11:58:23: 36000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 11:58:29: 34000000 INFO @ Tue, 16 Jun 2020 11:58:33: 31000000 INFO @ Tue, 16 Jun 2020 11:58:34: 37000000 INFO @ Tue, 16 Jun 2020 11:58:40: 35000000 INFO @ Tue, 16 Jun 2020 11:58:44: 32000000 INFO @ Tue, 16 Jun 2020 11:58:45: 38000000 INFO @ Tue, 16 Jun 2020 11:58:50: 36000000 INFO @ Tue, 16 Jun 2020 11:58:55: 33000000 INFO @ Tue, 16 Jun 2020 11:58:56: 39000000 INFO @ Tue, 16 Jun 2020 11:59:01: 37000000 INFO @ Tue, 16 Jun 2020 11:59:06: 34000000 INFO @ Tue, 16 Jun 2020 11:59:07: 40000000 INFO @ Tue, 16 Jun 2020 11:59:12: 38000000 INFO @ Tue, 16 Jun 2020 11:59:17: 35000000 INFO @ Tue, 16 Jun 2020 11:59:18: 41000000 INFO @ Tue, 16 Jun 2020 11:59:23: 39000000 INFO @ Tue, 16 Jun 2020 11:59:28: 36000000 INFO @ Tue, 16 Jun 2020 11:59:29: 42000000 INFO @ Tue, 16 Jun 2020 11:59:34: 40000000 INFO @ Tue, 16 Jun 2020 11:59:39: 37000000 INFO @ Tue, 16 Jun 2020 11:59:40: 43000000 INFO @ Tue, 16 Jun 2020 11:59:44: 41000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 11:59:50: 38000000 INFO @ Tue, 16 Jun 2020 11:59:50: 44000000 INFO @ Tue, 16 Jun 2020 11:59:55: 42000000 INFO @ Tue, 16 Jun 2020 12:00:01: 39000000 INFO @ Tue, 16 Jun 2020 12:00:01: 45000000 INFO @ Tue, 16 Jun 2020 12:00:06: 43000000 INFO @ Tue, 16 Jun 2020 12:00:12: 46000000 INFO @ Tue, 16 Jun 2020 12:00:12: 40000000 INFO @ Tue, 16 Jun 2020 12:00:17: 44000000 INFO @ Tue, 16 Jun 2020 12:00:23: 47000000 INFO @ Tue, 16 Jun 2020 12:00:23: 41000000 INFO @ Tue, 16 Jun 2020 12:00:28: 45000000 INFO @ Tue, 16 Jun 2020 12:00:34: 48000000 INFO @ Tue, 16 Jun 2020 12:00:35: 42000000 INFO @ Tue, 16 Jun 2020 12:00:39: 46000000 INFO @ Tue, 16 Jun 2020 12:00:45: 49000000 INFO @ Tue, 16 Jun 2020 12:00:46: 43000000 INFO @ Tue, 16 Jun 2020 12:00:49: 47000000 INFO @ Tue, 16 Jun 2020 12:00:55: 50000000 INFO @ Tue, 16 Jun 2020 12:00:57: 44000000 INFO @ Tue, 16 Jun 2020 12:01:00: 48000000 INFO @ Tue, 16 Jun 2020 12:01:06: 51000000 INFO @ Tue, 16 Jun 2020 12:01:08: 45000000 INFO @ Tue, 16 Jun 2020 12:01:11: 49000000 INFO @ Tue, 16 Jun 2020 12:01:18: 52000000 INFO @ Tue, 16 Jun 2020 12:01:19: 46000000 INFO @ Tue, 16 Jun 2020 12:01:22: 50000000 INFO @ Tue, 16 Jun 2020 12:01:27: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:01:27: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:01:27: #1 total tags in treatment: 14858337 INFO @ Tue, 16 Jun 2020 12:01:27: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:01:27: #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 12:01:27: #1 tags after filtering in treatment: 12714686 INFO @ Tue, 16 Jun 2020 12:01:27: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 12:01:27: #1 finished! INFO @ Tue, 16 Jun 2020 12:01:27: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:01:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:01:28: #2 number of paired peaks: 295 WARNING @ Tue, 16 Jun 2020 12:01:28: Fewer paired peaks (295) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 295 pairs to build model! INFO @ Tue, 16 Jun 2020 12:01:28: start model_add_line... INFO @ Tue, 16 Jun 2020 12:01:28: start X-correlation... INFO @ Tue, 16 Jun 2020 12:01:28: end of X-cor INFO @ Tue, 16 Jun 2020 12:01:28: #2 finished! INFO @ Tue, 16 Jun 2020 12:01:28: #2 predicted fragment length is 205 bps INFO @ Tue, 16 Jun 2020 12:01:28: #2 alternative fragment length(s) may be 205,209 bps INFO @ Tue, 16 Jun 2020 12:01:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05_model.r WARNING @ Tue, 16 Jun 2020 12:01:28: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:01:28: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Tue, 16 Jun 2020 12:01:28: #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 12:01:28: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:01:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:01:30: 47000000 INFO @ Tue, 16 Jun 2020 12:01:33: 51000000 INFO @ Tue, 16 Jun 2020 12:01:41: 48000000 INFO @ Tue, 16 Jun 2020 12:01:44: 52000000 INFO @ Tue, 16 Jun 2020 12:01:52: 49000000 INFO @ Tue, 16 Jun 2020 12:01:54: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:01:54: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:01:54: #1 total tags in treatment: 14858337 INFO @ Tue, 16 Jun 2020 12:01:54: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:01:54: #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 12:01:54: #1 tags after filtering in treatment: 12714686 INFO @ Tue, 16 Jun 2020 12:01:54: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 12:01:54: #1 finished! INFO @ Tue, 16 Jun 2020 12:01:54: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:01:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:01:55: #2 number of paired peaks: 295 WARNING @ Tue, 16 Jun 2020 12:01:55: Fewer paired peaks (295) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 295 pairs to build model! INFO @ Tue, 16 Jun 2020 12:01:55: start model_add_line... INFO @ Tue, 16 Jun 2020 12:01:55: start X-correlation... INFO @ Tue, 16 Jun 2020 12:01:55: end of X-cor INFO @ Tue, 16 Jun 2020 12:01:55: #2 finished! INFO @ Tue, 16 Jun 2020 12:01:55: #2 predicted fragment length is 205 bps INFO @ Tue, 16 Jun 2020 12:01:55: #2 alternative fragment length(s) may be 205,209 bps INFO @ Tue, 16 Jun 2020 12:01:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10_model.r WARNING @ Tue, 16 Jun 2020 12:01:55: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:01:55: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Tue, 16 Jun 2020 12:01:55: #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 12:01:55: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:01:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:01:56: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:02:02: 50000000 INFO @ Tue, 16 Jun 2020 12:02:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05_peaks.xls INFO @ Tue, 16 Jun 2020 12:02:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:02:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.05_summits.bed INFO @ Tue, 16 Jun 2020 12:02:09: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (531 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 12:02:12: 51000000 INFO @ Tue, 16 Jun 2020 12:02:22: 52000000 INFO @ Tue, 16 Jun 2020 12:02:22: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:02:30: #1 tag size is determined as 150 bps INFO @ Tue, 16 Jun 2020 12:02:30: #1 tag size = 150 INFO @ Tue, 16 Jun 2020 12:02:30: #1 total tags in treatment: 14858337 INFO @ Tue, 16 Jun 2020 12:02:30: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 12:02:30: #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 12:02:30: #1 tags after filtering in treatment: 12714686 INFO @ Tue, 16 Jun 2020 12:02:30: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 12:02:30: #1 finished! INFO @ Tue, 16 Jun 2020 12:02:30: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 12:02:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 12:02:31: #2 number of paired peaks: 295 WARNING @ Tue, 16 Jun 2020 12:02:31: Fewer paired peaks (295) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 295 pairs to build model! INFO @ Tue, 16 Jun 2020 12:02:31: start model_add_line... INFO @ Tue, 16 Jun 2020 12:02:31: start X-correlation... INFO @ Tue, 16 Jun 2020 12:02:31: end of X-cor INFO @ Tue, 16 Jun 2020 12:02:31: #2 finished! INFO @ Tue, 16 Jun 2020 12:02:31: #2 predicted fragment length is 205 bps INFO @ Tue, 16 Jun 2020 12:02:31: #2 alternative fragment length(s) may be 205,209 bps INFO @ Tue, 16 Jun 2020 12:02:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20_model.r WARNING @ Tue, 16 Jun 2020 12:02:31: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 12:02:31: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Tue, 16 Jun 2020 12:02:31: #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 12:02:31: #3 Call peaks... INFO @ Tue, 16 Jun 2020 12:02:31: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 12:02:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10_peaks.xls INFO @ Tue, 16 Jun 2020 12:02:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:02:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.10_summits.bed INFO @ Tue, 16 Jun 2020 12:02:35: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (358 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 12:02:58: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 12:03:11: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20_peaks.xls INFO @ Tue, 16 Jun 2020 12:03:11: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 12:03:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6619595/SRX6619595.20_summits.bed INFO @ Tue, 16 Jun 2020 12:03:11: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (221 records, 4 fields): 1 millis CompletedMACS2peakCalling