Job ID = 12265213 SRX = SRX4517987 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32981221 spots for SRR7655591/SRR7655591.sra Written 32981221 spots for SRR7655591/SRR7655591.sra fastq に変換しました。 bowtie でマッピング中... Your job 12265507 ("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: 00:28:39 32981221 reads; of these: 32981221 (100.00%) were paired; of these: 5782205 (17.53%) aligned concordantly 0 times 25862376 (78.42%) aligned concordantly exactly 1 time 1336640 (4.05%) aligned concordantly >1 times ---- 5782205 pairs aligned concordantly 0 times; of these: 2843012 (49.17%) aligned discordantly 1 time ---- 2939193 pairs aligned 0 times concordantly or discordantly; of these: 5878386 mates make up the pairs; of these: 4684638 (79.69%) aligned 0 times 815278 (13.87%) aligned exactly 1 time 378470 (6.44%) aligned >1 times 92.90% overall alignment rate Time searching: 00:28:39 Overall time: 00:28:39 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 28 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] 2655716 / 29517229 = 0.0900 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:07:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.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 @ Sat, 03 Apr 2021 07:07:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:07:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:07:53: 1000000 INFO @ Sat, 03 Apr 2021 07:07:59: 2000000 INFO @ Sat, 03 Apr 2021 07:08:05: 3000000 INFO @ Sat, 03 Apr 2021 07:08:11: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:08:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.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 @ Sat, 03 Apr 2021 07:08:17: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:08:17: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:08:18: 5000000 INFO @ Sat, 03 Apr 2021 07:08:24: 1000000 INFO @ Sat, 03 Apr 2021 07:08:24: 6000000 INFO @ Sat, 03 Apr 2021 07:08:31: 2000000 INFO @ Sat, 03 Apr 2021 07:08:31: 7000000 INFO @ Sat, 03 Apr 2021 07:08:38: 8000000 INFO @ Sat, 03 Apr 2021 07:08:38: 3000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 07:08:45: 9000000 INFO @ Sat, 03 Apr 2021 07:08:45: 4000000 INFO @ Sat, 03 Apr 2021 07:08:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.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 @ Sat, 03 Apr 2021 07:08:47: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:08:47: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:08:53: 5000000 INFO @ Sat, 03 Apr 2021 07:08:54: 10000000 INFO @ Sat, 03 Apr 2021 07:08:55: 1000000 INFO @ Sat, 03 Apr 2021 07:09:01: 6000000 INFO @ Sat, 03 Apr 2021 07:09:01: 11000000 INFO @ Sat, 03 Apr 2021 07:09:03: 2000000 INFO @ Sat, 03 Apr 2021 07:09:08: 7000000 INFO @ Sat, 03 Apr 2021 07:09:09: 12000000 INFO @ Sat, 03 Apr 2021 07:09:11: 3000000 INFO @ Sat, 03 Apr 2021 07:09:16: 8000000 INFO @ Sat, 03 Apr 2021 07:09:17: 13000000 INFO @ Sat, 03 Apr 2021 07:09:19: 4000000 INFO @ Sat, 03 Apr 2021 07:09:23: 9000000 INFO @ Sat, 03 Apr 2021 07:09:24: 14000000 INFO @ Sat, 03 Apr 2021 07:09:26: 5000000 INFO @ Sat, 03 Apr 2021 07:09:31: 15000000 INFO @ Sat, 03 Apr 2021 07:09:32: 10000000 INFO @ Sat, 03 Apr 2021 07:09:34: 6000000 INFO @ Sat, 03 Apr 2021 07:09:39: 16000000 INFO @ Sat, 03 Apr 2021 07:09:39: 11000000 INFO @ Sat, 03 Apr 2021 07:09:41: 7000000 INFO @ Sat, 03 Apr 2021 07:09:46: 17000000 INFO @ Sat, 03 Apr 2021 07:09:47: 12000000 INFO @ Sat, 03 Apr 2021 07:09:48: 8000000 INFO @ Sat, 03 Apr 2021 07:09:54: 18000000 INFO @ Sat, 03 Apr 2021 07:09:54: 13000000 INFO @ Sat, 03 Apr 2021 07:09:56: 9000000 INFO @ Sat, 03 Apr 2021 07:10:00: 14000000 INFO @ Sat, 03 Apr 2021 07:10:02: 19000000 INFO @ Sat, 03 Apr 2021 07:10:05: 10000000 INFO @ Sat, 03 Apr 2021 07:10:06: 15000000 INFO @ Sat, 03 Apr 2021 07:10:10: 20000000 INFO @ Sat, 03 Apr 2021 07:10:13: 11000000 INFO @ Sat, 03 Apr 2021 07:10:13: 16000000 INFO @ Sat, 03 Apr 2021 07:10:19: 17000000 INFO @ Sat, 03 Apr 2021 07:10:19: 21000000 INFO @ Sat, 03 Apr 2021 07:10:21: 12000000 INFO @ Sat, 03 Apr 2021 07:10:26: 18000000 INFO @ Sat, 03 Apr 2021 07:10:28: 22000000 INFO @ Sat, 03 Apr 2021 07:10:31: 13000000 INFO @ Sat, 03 Apr 2021 07:10:34: 19000000 INFO @ Sat, 03 Apr 2021 07:10:38: 23000000 INFO @ Sat, 03 Apr 2021 07:10:39: 14000000 INFO @ Sat, 03 Apr 2021 07:10:40: 20000000 INFO @ Sat, 03 Apr 2021 07:10:47: 21000000 INFO @ Sat, 03 Apr 2021 07:10:48: 24000000 INFO @ Sat, 03 Apr 2021 07:10:48: 15000000 INFO @ Sat, 03 Apr 2021 07:10:53: 22000000 INFO @ Sat, 03 Apr 2021 07:10:58: 16000000 INFO @ Sat, 03 Apr 2021 07:10:59: 25000000 INFO @ Sat, 03 Apr 2021 07:10:59: 23000000 INFO @ Sat, 03 Apr 2021 07:11:05: 24000000 INFO @ Sat, 03 Apr 2021 07:11:08: 17000000 INFO @ Sat, 03 Apr 2021 07:11:09: 26000000 INFO @ Sat, 03 Apr 2021 07:11:12: 25000000 INFO @ Sat, 03 Apr 2021 07:11:17: 18000000 INFO @ Sat, 03 Apr 2021 07:11:18: 26000000 INFO @ Sat, 03 Apr 2021 07:11:18: 27000000 INFO @ Sat, 03 Apr 2021 07:11:25: 27000000 INFO @ Sat, 03 Apr 2021 07:11:27: 19000000 INFO @ Sat, 03 Apr 2021 07:11:28: 28000000 INFO @ Sat, 03 Apr 2021 07:11:31: 28000000 INFO @ Sat, 03 Apr 2021 07:11:37: 29000000 INFO @ Sat, 03 Apr 2021 07:11:37: 29000000 INFO @ Sat, 03 Apr 2021 07:11:38: 20000000 INFO @ Sat, 03 Apr 2021 07:11:43: 30000000 INFO @ Sat, 03 Apr 2021 07:11:46: 30000000 INFO @ Sat, 03 Apr 2021 07:11:46: 21000000 INFO @ Sat, 03 Apr 2021 07:11:50: 31000000 INFO @ Sat, 03 Apr 2021 07:11:55: 31000000 INFO @ Sat, 03 Apr 2021 07:11:56: 22000000 INFO @ Sat, 03 Apr 2021 07:11:56: 32000000 INFO @ Sat, 03 Apr 2021 07:12:02: 33000000 INFO @ Sat, 03 Apr 2021 07:12:04: 32000000 INFO @ Sat, 03 Apr 2021 07:12:04: 23000000 INFO @ Sat, 03 Apr 2021 07:12:09: 34000000 INFO @ Sat, 03 Apr 2021 07:12:13: 33000000 INFO @ Sat, 03 Apr 2021 07:12:13: 24000000 INFO @ Sat, 03 Apr 2021 07:12:16: 35000000 INFO @ Sat, 03 Apr 2021 07:12:22: 34000000 INFO @ Sat, 03 Apr 2021 07:12:23: 25000000 INFO @ Sat, 03 Apr 2021 07:12:23: 36000000 INFO @ Sat, 03 Apr 2021 07:12:29: 37000000 INFO @ Sat, 03 Apr 2021 07:12:30: 35000000 INFO @ Sat, 03 Apr 2021 07:12:31: 26000000 INFO @ Sat, 03 Apr 2021 07:12:36: 38000000 INFO @ Sat, 03 Apr 2021 07:12:39: 36000000 INFO @ Sat, 03 Apr 2021 07:12:40: 27000000 INFO @ Sat, 03 Apr 2021 07:12:42: 39000000 INFO @ Sat, 03 Apr 2021 07:12:48: 37000000 INFO @ Sat, 03 Apr 2021 07:12:48: 40000000 INFO @ Sat, 03 Apr 2021 07:12:49: 28000000 INFO @ Sat, 03 Apr 2021 07:12:54: 41000000 INFO @ Sat, 03 Apr 2021 07:12:57: 38000000 INFO @ Sat, 03 Apr 2021 07:12:58: 29000000 INFO @ Sat, 03 Apr 2021 07:13:00: 42000000 INFO @ Sat, 03 Apr 2021 07:13:06: 39000000 INFO @ Sat, 03 Apr 2021 07:13:07: 43000000 INFO @ Sat, 03 Apr 2021 07:13:07: 30000000 INFO @ Sat, 03 Apr 2021 07:13:13: 44000000 INFO @ Sat, 03 Apr 2021 07:13:15: 40000000 INFO @ Sat, 03 Apr 2021 07:13:17: 31000000 INFO @ Sat, 03 Apr 2021 07:13:19: 45000000 INFO @ Sat, 03 Apr 2021 07:13:25: 46000000 INFO @ Sat, 03 Apr 2021 07:13:25: 41000000 INFO @ Sat, 03 Apr 2021 07:13:26: 32000000 INFO @ Sat, 03 Apr 2021 07:13:32: 47000000 INFO @ Sat, 03 Apr 2021 07:13:35: 42000000 INFO @ Sat, 03 Apr 2021 07:13:35: 33000000 INFO @ Sat, 03 Apr 2021 07:13:38: 48000000 INFO @ Sat, 03 Apr 2021 07:13:43: 43000000 INFO @ Sat, 03 Apr 2021 07:13:44: 34000000 INFO @ Sat, 03 Apr 2021 07:13:45: 49000000 INFO @ Sat, 03 Apr 2021 07:13:52: 44000000 INFO @ Sat, 03 Apr 2021 07:13:53: 50000000 INFO @ Sat, 03 Apr 2021 07:13:55: 35000000 INFO @ Sat, 03 Apr 2021 07:13:59: 51000000 INFO @ Sat, 03 Apr 2021 07:14:02: 45000000 INFO @ Sat, 03 Apr 2021 07:14:05: 52000000 INFO @ Sat, 03 Apr 2021 07:14:06: 36000000 INFO @ Sat, 03 Apr 2021 07:14:11: 53000000 INFO @ Sat, 03 Apr 2021 07:14:12: 46000000 INFO @ Sat, 03 Apr 2021 07:14:15: 37000000 INFO @ Sat, 03 Apr 2021 07:14:17: 54000000 INFO @ Sat, 03 Apr 2021 07:14:21: 47000000 INFO @ Sat, 03 Apr 2021 07:14:23: 55000000 INFO @ Sat, 03 Apr 2021 07:14:26: 38000000 INFO @ Sat, 03 Apr 2021 07:14:29: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:14:29: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:14:29: #1 total tags in treatment: 24996406 INFO @ Sat, 03 Apr 2021 07:14:29: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:14:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:14:30: #1 tags after filtering in treatment: 16641020 INFO @ Sat, 03 Apr 2021 07:14:30: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 03 Apr 2021 07:14:30: #1 finished! INFO @ Sat, 03 Apr 2021 07:14:30: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:14:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:14:31: 48000000 INFO @ Sat, 03 Apr 2021 07:14:31: #2 number of paired peaks: 832 WARNING @ Sat, 03 Apr 2021 07:14:31: Fewer paired peaks (832) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 832 pairs to build model! INFO @ Sat, 03 Apr 2021 07:14:31: start model_add_line... INFO @ Sat, 03 Apr 2021 07:14:31: start X-correlation... INFO @ Sat, 03 Apr 2021 07:14:31: end of X-cor INFO @ Sat, 03 Apr 2021 07:14:31: #2 finished! INFO @ Sat, 03 Apr 2021 07:14:31: #2 predicted fragment length is 55 bps INFO @ Sat, 03 Apr 2021 07:14:31: #2 alternative fragment length(s) may be 55 bps INFO @ Sat, 03 Apr 2021 07:14:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10_model.r WARNING @ Sat, 03 Apr 2021 07:14:31: #2 Since the d (55) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:14:31: #2 You may need to consider one of the other alternative d(s): 55 WARNING @ Sat, 03 Apr 2021 07:14:31: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:14:31: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:14:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:14:35: 39000000 INFO @ Sat, 03 Apr 2021 07:14:40: 49000000 INFO @ Sat, 03 Apr 2021 07:14:44: 40000000 INFO @ Sat, 03 Apr 2021 07:14:50: 50000000 INFO @ Sat, 03 Apr 2021 07:14:54: 41000000 INFO @ Sat, 03 Apr 2021 07:15:00: 51000000 INFO @ Sat, 03 Apr 2021 07:15:02: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:15:04: 42000000 INFO @ Sat, 03 Apr 2021 07:15:09: 52000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:15:14: 43000000 INFO @ Sat, 03 Apr 2021 07:15:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:15:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:15:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.10_summits.bed INFO @ Sat, 03 Apr 2021 07:15:18: Done! pass1 - making usageList (13 chroms): 1 millis pass2 - checking and writing primary data (4953 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:15:19: 53000000 INFO @ Sat, 03 Apr 2021 07:15:22: 44000000 INFO @ Sat, 03 Apr 2021 07:15:27: 54000000 INFO @ Sat, 03 Apr 2021 07:15:31: 45000000 INFO @ Sat, 03 Apr 2021 07:15:36: 55000000 INFO @ Sat, 03 Apr 2021 07:15:39: 46000000 INFO @ Sat, 03 Apr 2021 07:15:44: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:15:44: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:15:44: #1 total tags in treatment: 24996406 INFO @ Sat, 03 Apr 2021 07:15:44: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:15:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:15:44: #1 tags after filtering in treatment: 16641020 INFO @ Sat, 03 Apr 2021 07:15:44: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 03 Apr 2021 07:15:44: #1 finished! INFO @ Sat, 03 Apr 2021 07:15:44: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:15:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:15:46: #2 number of paired peaks: 832 WARNING @ Sat, 03 Apr 2021 07:15:46: Fewer paired peaks (832) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 832 pairs to build model! INFO @ Sat, 03 Apr 2021 07:15:46: start model_add_line... INFO @ Sat, 03 Apr 2021 07:15:46: start X-correlation... INFO @ Sat, 03 Apr 2021 07:15:46: end of X-cor INFO @ Sat, 03 Apr 2021 07:15:46: #2 finished! INFO @ Sat, 03 Apr 2021 07:15:46: #2 predicted fragment length is 55 bps INFO @ Sat, 03 Apr 2021 07:15:46: #2 alternative fragment length(s) may be 55 bps INFO @ Sat, 03 Apr 2021 07:15:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05_model.r WARNING @ Sat, 03 Apr 2021 07:15:46: #2 Since the d (55) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:15:46: #2 You may need to consider one of the other alternative d(s): 55 WARNING @ Sat, 03 Apr 2021 07:15:46: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:15:46: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:15:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:15:48: 47000000 INFO @ Sat, 03 Apr 2021 07:15:57: 48000000 INFO @ Sat, 03 Apr 2021 07:16:06: 49000000 INFO @ Sat, 03 Apr 2021 07:16:14: 50000000 INFO @ Sat, 03 Apr 2021 07:16:23: 51000000 INFO @ Sat, 03 Apr 2021 07:16:23: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:16:32: 52000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:16:40: 53000000 INFO @ Sat, 03 Apr 2021 07:16:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:16:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:16:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.05_summits.bed INFO @ Sat, 03 Apr 2021 07:16:43: Done! pass1 - making usageList (13 chroms): 13 millis pass2 - checking and writing primary data (12260 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:16:49: 54000000 INFO @ Sat, 03 Apr 2021 07:16:57: 55000000 INFO @ Sat, 03 Apr 2021 07:17:05: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:17:05: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:17:05: #1 total tags in treatment: 24996406 INFO @ Sat, 03 Apr 2021 07:17:05: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:17:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 07:17:05: #1 tags after filtering in treatment: 16641020 INFO @ Sat, 03 Apr 2021 07:17:05: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 03 Apr 2021 07:17:05: #1 finished! INFO @ Sat, 03 Apr 2021 07:17:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:17:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:17:07: #2 number of paired peaks: 832 WARNING @ Sat, 03 Apr 2021 07:17:07: Fewer paired peaks (832) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 832 pairs to build model! INFO @ Sat, 03 Apr 2021 07:17:07: start model_add_line... INFO @ Sat, 03 Apr 2021 07:17:07: start X-correlation... INFO @ Sat, 03 Apr 2021 07:17:07: end of X-cor INFO @ Sat, 03 Apr 2021 07:17:07: #2 finished! INFO @ Sat, 03 Apr 2021 07:17:07: #2 predicted fragment length is 55 bps INFO @ Sat, 03 Apr 2021 07:17:07: #2 alternative fragment length(s) may be 55 bps INFO @ Sat, 03 Apr 2021 07:17:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20_model.r WARNING @ Sat, 03 Apr 2021 07:17:07: #2 Since the d (55) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:17:07: #2 You may need to consider one of the other alternative d(s): 55 WARNING @ Sat, 03 Apr 2021 07:17:07: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:17:07: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:17:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:17:39: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:17:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:17:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:17:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4517987/SRX4517987.20_summits.bed INFO @ Sat, 03 Apr 2021 07:17:56: Done! pass1 - making usageList (10 chroms): 0 millis pass2 - checking and writing primary data (590 records, 4 fields): 3 millis CompletedMACS2peakCalling