Job ID = 14171779 SRX = SRX10386239 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 28540216 spots for SRR14009304/SRR14009304.sra Written 28540216 spots for SRR14009304/SRR14009304.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172472 ("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: 00:58:01 28540216 reads; of these: 28540216 (100.00%) were paired; of these: 2299840 (8.06%) aligned concordantly 0 times 17305035 (60.63%) aligned concordantly exactly 1 time 8935341 (31.31%) aligned concordantly >1 times ---- 2299840 pairs aligned concordantly 0 times; of these: 387537 (16.85%) aligned discordantly 1 time ---- 1912303 pairs aligned 0 times concordantly or discordantly; of these: 3824606 mates make up the pairs; of these: 2651102 (69.32%) aligned 0 times 613093 (16.03%) aligned exactly 1 time 560411 (14.65%) aligned >1 times 95.36% overall alignment rate Time searching: 00:58:01 Overall time: 00:58:01 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 24 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] 2248849 / 26584997 = 0.0846 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 13:59:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.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, 11 Dec 2021 13:59:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 13:59:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 13:59:58: 1000000 INFO @ Sat, 11 Dec 2021 14:00:03: 2000000 INFO @ Sat, 11 Dec 2021 14:00:09: 3000000 INFO @ Sat, 11 Dec 2021 14:00:14: 4000000 INFO @ Sat, 11 Dec 2021 14:00:20: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:00:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.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, 11 Dec 2021 14:00:22: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:00:22: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:00:26: 6000000 INFO @ Sat, 11 Dec 2021 14:00:27: 1000000 INFO @ Sat, 11 Dec 2021 14:00:31: 7000000 INFO @ Sat, 11 Dec 2021 14:00:32: 2000000 INFO @ Sat, 11 Dec 2021 14:00:37: 8000000 INFO @ Sat, 11 Dec 2021 14:00:37: 3000000 INFO @ Sat, 11 Dec 2021 14:00:42: 4000000 INFO @ Sat, 11 Dec 2021 14:00:43: 9000000 INFO @ Sat, 11 Dec 2021 14:00:47: 5000000 INFO @ Sat, 11 Dec 2021 14:00:48: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 14:00:52: 6000000 INFO @ Sat, 11 Dec 2021 14:00:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.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, 11 Dec 2021 14:00:52: #1 read tag files... INFO @ Sat, 11 Dec 2021 14:00:52: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 14:00:54: 11000000 INFO @ Sat, 11 Dec 2021 14:00:57: 7000000 INFO @ Sat, 11 Dec 2021 14:00:58: 1000000 INFO @ Sat, 11 Dec 2021 14:01:00: 12000000 INFO @ Sat, 11 Dec 2021 14:01:02: 8000000 INFO @ Sat, 11 Dec 2021 14:01:03: 2000000 INFO @ Sat, 11 Dec 2021 14:01:05: 13000000 INFO @ Sat, 11 Dec 2021 14:01:07: 9000000 INFO @ Sat, 11 Dec 2021 14:01:09: 3000000 INFO @ Sat, 11 Dec 2021 14:01:11: 14000000 INFO @ Sat, 11 Dec 2021 14:01:12: 10000000 INFO @ Sat, 11 Dec 2021 14:01:15: 4000000 INFO @ Sat, 11 Dec 2021 14:01:16: 11000000 INFO @ Sat, 11 Dec 2021 14:01:17: 15000000 INFO @ Sat, 11 Dec 2021 14:01:20: 5000000 INFO @ Sat, 11 Dec 2021 14:01:21: 12000000 INFO @ Sat, 11 Dec 2021 14:01:22: 16000000 INFO @ Sat, 11 Dec 2021 14:01:26: 6000000 INFO @ Sat, 11 Dec 2021 14:01:26: 13000000 INFO @ Sat, 11 Dec 2021 14:01:28: 17000000 INFO @ Sat, 11 Dec 2021 14:01:31: 14000000 INFO @ Sat, 11 Dec 2021 14:01:32: 7000000 INFO @ Sat, 11 Dec 2021 14:01:34: 18000000 INFO @ Sat, 11 Dec 2021 14:01:36: 15000000 INFO @ Sat, 11 Dec 2021 14:01:37: 8000000 INFO @ Sat, 11 Dec 2021 14:01:39: 19000000 INFO @ Sat, 11 Dec 2021 14:01:41: 16000000 INFO @ Sat, 11 Dec 2021 14:01:43: 9000000 INFO @ Sat, 11 Dec 2021 14:01:45: 20000000 INFO @ Sat, 11 Dec 2021 14:01:46: 17000000 INFO @ Sat, 11 Dec 2021 14:01:49: 10000000 INFO @ Sat, 11 Dec 2021 14:01:51: 21000000 INFO @ Sat, 11 Dec 2021 14:01:51: 18000000 INFO @ Sat, 11 Dec 2021 14:01:55: 11000000 INFO @ Sat, 11 Dec 2021 14:01:56: 19000000 INFO @ Sat, 11 Dec 2021 14:01:56: 22000000 INFO @ Sat, 11 Dec 2021 14:02:00: 12000000 INFO @ Sat, 11 Dec 2021 14:02:01: 20000000 INFO @ Sat, 11 Dec 2021 14:02:02: 23000000 INFO @ Sat, 11 Dec 2021 14:02:06: 21000000 INFO @ Sat, 11 Dec 2021 14:02:06: 13000000 INFO @ Sat, 11 Dec 2021 14:02:08: 24000000 INFO @ Sat, 11 Dec 2021 14:02:10: 22000000 INFO @ Sat, 11 Dec 2021 14:02:12: 14000000 INFO @ Sat, 11 Dec 2021 14:02:13: 25000000 INFO @ Sat, 11 Dec 2021 14:02:15: 23000000 INFO @ Sat, 11 Dec 2021 14:02:17: 15000000 INFO @ Sat, 11 Dec 2021 14:02:19: 26000000 INFO @ Sat, 11 Dec 2021 14:02:20: 24000000 INFO @ Sat, 11 Dec 2021 14:02:23: 16000000 INFO @ Sat, 11 Dec 2021 14:02:25: 27000000 INFO @ Sat, 11 Dec 2021 14:02:25: 25000000 INFO @ Sat, 11 Dec 2021 14:02:29: 17000000 INFO @ Sat, 11 Dec 2021 14:02:30: 26000000 INFO @ Sat, 11 Dec 2021 14:02:30: 28000000 INFO @ Sat, 11 Dec 2021 14:02:34: 18000000 INFO @ Sat, 11 Dec 2021 14:02:35: 27000000 INFO @ Sat, 11 Dec 2021 14:02:36: 29000000 INFO @ Sat, 11 Dec 2021 14:02:40: 28000000 INFO @ Sat, 11 Dec 2021 14:02:40: 19000000 INFO @ Sat, 11 Dec 2021 14:02:42: 30000000 INFO @ Sat, 11 Dec 2021 14:02:45: 29000000 INFO @ Sat, 11 Dec 2021 14:02:46: 20000000 INFO @ Sat, 11 Dec 2021 14:02:47: 31000000 INFO @ Sat, 11 Dec 2021 14:02:50: 30000000 INFO @ Sat, 11 Dec 2021 14:02:51: 21000000 INFO @ Sat, 11 Dec 2021 14:02:53: 32000000 INFO @ Sat, 11 Dec 2021 14:02:55: 31000000 INFO @ Sat, 11 Dec 2021 14:02:57: 22000000 INFO @ Sat, 11 Dec 2021 14:02:59: 33000000 INFO @ Sat, 11 Dec 2021 14:03:00: 32000000 INFO @ Sat, 11 Dec 2021 14:03:03: 23000000 INFO @ Sat, 11 Dec 2021 14:03:04: 34000000 INFO @ Sat, 11 Dec 2021 14:03:05: 33000000 INFO @ Sat, 11 Dec 2021 14:03:08: 24000000 INFO @ Sat, 11 Dec 2021 14:03:10: 34000000 INFO @ Sat, 11 Dec 2021 14:03:10: 35000000 INFO @ Sat, 11 Dec 2021 14:03:14: 25000000 INFO @ Sat, 11 Dec 2021 14:03:15: 35000000 INFO @ Sat, 11 Dec 2021 14:03:15: 36000000 INFO @ Sat, 11 Dec 2021 14:03:19: 26000000 INFO @ Sat, 11 Dec 2021 14:03:20: 36000000 INFO @ Sat, 11 Dec 2021 14:03:21: 37000000 INFO @ Sat, 11 Dec 2021 14:03:25: 37000000 INFO @ Sat, 11 Dec 2021 14:03:25: 27000000 INFO @ Sat, 11 Dec 2021 14:03:27: 38000000 INFO @ Sat, 11 Dec 2021 14:03:30: 38000000 INFO @ Sat, 11 Dec 2021 14:03:31: 28000000 INFO @ Sat, 11 Dec 2021 14:03:32: 39000000 INFO @ Sat, 11 Dec 2021 14:03:35: 39000000 INFO @ Sat, 11 Dec 2021 14:03:36: 29000000 INFO @ Sat, 11 Dec 2021 14:03:38: 40000000 INFO @ Sat, 11 Dec 2021 14:03:40: 40000000 INFO @ Sat, 11 Dec 2021 14:03:42: 30000000 INFO @ Sat, 11 Dec 2021 14:03:44: 41000000 INFO @ Sat, 11 Dec 2021 14:03:45: 41000000 INFO @ Sat, 11 Dec 2021 14:03:47: 31000000 INFO @ Sat, 11 Dec 2021 14:03:49: 42000000 INFO @ Sat, 11 Dec 2021 14:03:50: 42000000 INFO @ Sat, 11 Dec 2021 14:03:53: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 14:03:55: 43000000 INFO @ Sat, 11 Dec 2021 14:03:56: 43000000 INFO @ Sat, 11 Dec 2021 14:03:59: 33000000 INFO @ Sat, 11 Dec 2021 14:04:01: 44000000 INFO @ Sat, 11 Dec 2021 14:04:01: 44000000 INFO @ Sat, 11 Dec 2021 14:04:04: 34000000 INFO @ Sat, 11 Dec 2021 14:04:06: 45000000 INFO @ Sat, 11 Dec 2021 14:04:07: 45000000 INFO @ Sat, 11 Dec 2021 14:04:10: 35000000 INFO @ Sat, 11 Dec 2021 14:04:12: 46000000 INFO @ Sat, 11 Dec 2021 14:04:13: 46000000 INFO @ Sat, 11 Dec 2021 14:04:16: 36000000 INFO @ Sat, 11 Dec 2021 14:04:18: 47000000 INFO @ Sat, 11 Dec 2021 14:04:18: 47000000 INFO @ Sat, 11 Dec 2021 14:04:21: 37000000 INFO @ Sat, 11 Dec 2021 14:04:23: 48000000 INFO @ Sat, 11 Dec 2021 14:04:24: 48000000 INFO @ Sat, 11 Dec 2021 14:04:27: 38000000 INFO @ Sat, 11 Dec 2021 14:04:29: 49000000 INFO @ Sat, 11 Dec 2021 14:04:30: 49000000 INFO @ Sat, 11 Dec 2021 14:04:33: 39000000 INFO @ Sat, 11 Dec 2021 14:04:34: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 14:04:34: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 14:04:34: #1 total tags in treatment: 23993607 INFO @ Sat, 11 Dec 2021 14:04:34: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:04:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:04:35: #1 tags after filtering in treatment: 18794138 INFO @ Sat, 11 Dec 2021 14:04:35: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 11 Dec 2021 14:04:35: #1 finished! INFO @ Sat, 11 Dec 2021 14:04:35: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:04:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:04:35: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 14:04:35: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 14:04:35: #1 total tags in treatment: 23993607 INFO @ Sat, 11 Dec 2021 14:04:35: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:04:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:04:36: #1 tags after filtering in treatment: 18794138 INFO @ Sat, 11 Dec 2021 14:04:36: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 11 Dec 2021 14:04:36: #1 finished! INFO @ Sat, 11 Dec 2021 14:04:36: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:04:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:04:36: #2 number of paired peaks: 140 WARNING @ Sat, 11 Dec 2021 14:04:36: Fewer paired peaks (140) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 140 pairs to build model! INFO @ Sat, 11 Dec 2021 14:04:36: start model_add_line... INFO @ Sat, 11 Dec 2021 14:04:36: start X-correlation... INFO @ Sat, 11 Dec 2021 14:04:36: end of X-cor INFO @ Sat, 11 Dec 2021 14:04:36: #2 finished! INFO @ Sat, 11 Dec 2021 14:04:36: #2 predicted fragment length is 95 bps INFO @ Sat, 11 Dec 2021 14:04:36: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 11 Dec 2021 14:04:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05_model.r WARNING @ Sat, 11 Dec 2021 14:04:36: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 14:04:36: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 11 Dec 2021 14:04:36: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 14:04:36: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:04:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:04:37: #2 number of paired peaks: 140 WARNING @ Sat, 11 Dec 2021 14:04:37: Fewer paired peaks (140) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 140 pairs to build model! INFO @ Sat, 11 Dec 2021 14:04:37: start model_add_line... INFO @ Sat, 11 Dec 2021 14:04:37: start X-correlation... INFO @ Sat, 11 Dec 2021 14:04:37: end of X-cor INFO @ Sat, 11 Dec 2021 14:04:37: #2 finished! INFO @ Sat, 11 Dec 2021 14:04:37: #2 predicted fragment length is 95 bps INFO @ Sat, 11 Dec 2021 14:04:37: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 11 Dec 2021 14:04:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10_model.r WARNING @ Sat, 11 Dec 2021 14:04:37: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 14:04:37: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 11 Dec 2021 14:04:37: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 14:04:37: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:04:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:04:38: 40000000 INFO @ Sat, 11 Dec 2021 14:04:44: 41000000 INFO @ Sat, 11 Dec 2021 14:04:49: 42000000 INFO @ Sat, 11 Dec 2021 14:04:54: 43000000 INFO @ Sat, 11 Dec 2021 14:05:00: 44000000 INFO @ Sat, 11 Dec 2021 14:05:05: 45000000 INFO @ Sat, 11 Dec 2021 14:05:10: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:05:10: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:05:11: 46000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 14:05:16: 47000000 INFO @ Sat, 11 Dec 2021 14:05:21: 48000000 INFO @ Sat, 11 Dec 2021 14:05:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05_peaks.xls INFO @ Sat, 11 Dec 2021 14:05:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:05:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.05_summits.bed INFO @ Sat, 11 Dec 2021 14:05:26: Done! pass1 - making usageList (15 chroms): 0 millis pass2 - checking and writing primary data (1640 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:05:27: 49000000 INFO @ Sat, 11 Dec 2021 14:05:27: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10_peaks.xls INFO @ Sat, 11 Dec 2021 14:05:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:05:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.10_summits.bed INFO @ Sat, 11 Dec 2021 14:05:27: Done! pass1 - making usageList (12 chroms): 1 millis pass2 - checking and writing primary data (1093 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 14:05:32: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 14:05:32: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 14:05:32: #1 total tags in treatment: 23993607 INFO @ Sat, 11 Dec 2021 14:05:32: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 14:05:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 14:05:32: #1 tags after filtering in treatment: 18794138 INFO @ Sat, 11 Dec 2021 14:05:32: #1 Redundant rate of treatment: 0.22 INFO @ Sat, 11 Dec 2021 14:05:32: #1 finished! INFO @ Sat, 11 Dec 2021 14:05:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 14:05:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 14:05:33: #2 number of paired peaks: 140 WARNING @ Sat, 11 Dec 2021 14:05:33: Fewer paired peaks (140) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 140 pairs to build model! INFO @ Sat, 11 Dec 2021 14:05:33: start model_add_line... INFO @ Sat, 11 Dec 2021 14:05:33: start X-correlation... INFO @ Sat, 11 Dec 2021 14:05:33: end of X-cor INFO @ Sat, 11 Dec 2021 14:05:33: #2 finished! INFO @ Sat, 11 Dec 2021 14:05:33: #2 predicted fragment length is 95 bps INFO @ Sat, 11 Dec 2021 14:05:33: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 11 Dec 2021 14:05:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20_model.r WARNING @ Sat, 11 Dec 2021 14:05:33: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 14:05:33: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 11 Dec 2021 14:05:33: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 14:05:33: #3 Call peaks... INFO @ Sat, 11 Dec 2021 14:05:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 14:06:07: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 14:06:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20_peaks.xls INFO @ Sat, 11 Dec 2021 14:06:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 14:06:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX10386239/SRX10386239.20_summits.bed INFO @ Sat, 11 Dec 2021 14:06:24: Done! pass1 - making usageList (10 chroms): 1 millis pass2 - checking and writing primary data (760 records, 4 fields): 2 millis CompletedMACS2peakCalling