Job ID = 14172139 SRX = SRX9103829 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 58699248 spots for SRR12621029/SRR12621029.sra Written 58699248 spots for SRR12621029/SRR12621029.sra fastq に変換しました。 bowtie でマッピング中... Your job 14172882 ("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: 00:59:59 58699248 reads; of these: 58699248 (100.00%) were paired; of these: 17511225 (29.83%) aligned concordantly 0 times 20827034 (35.48%) aligned concordantly exactly 1 time 20360989 (34.69%) aligned concordantly >1 times ---- 17511225 pairs aligned concordantly 0 times; of these: 4893042 (27.94%) aligned discordantly 1 time ---- 12618183 pairs aligned 0 times concordantly or discordantly; of these: 25236366 mates make up the pairs; of these: 17884362 (70.87%) aligned 0 times 1801617 (7.14%) aligned exactly 1 time 5550387 (21.99%) aligned >1 times 84.77% overall alignment rate Time searching: 00:59:59 Overall time: 00:59:59 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 44 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] 17497083 / 45403943 = 0.3854 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 15:54:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.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 15:54:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:54:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:54:57: 1000000 INFO @ Sat, 11 Dec 2021 15:55:03: 2000000 INFO @ Sat, 11 Dec 2021 15:55:10: 3000000 INFO @ Sat, 11 Dec 2021 15:55:17: 4000000 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 15:55:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.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 15:55:20: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:55:20: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:55:23: 5000000 INFO @ Sat, 11 Dec 2021 15:55:27: 1000000 INFO @ Sat, 11 Dec 2021 15:55:31: 6000000 INFO @ Sat, 11 Dec 2021 15:55:34: 2000000 INFO @ Sat, 11 Dec 2021 15:55:38: 7000000 INFO @ Sat, 11 Dec 2021 15:55:40: 3000000 INFO @ Sat, 11 Dec 2021 15:55:46: 8000000 INFO @ Sat, 11 Dec 2021 15:55:47: 4000000 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 15:55:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.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 15:55:50: #1 read tag files... INFO @ Sat, 11 Dec 2021 15:55:50: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 15:55:53: 9000000 INFO @ Sat, 11 Dec 2021 15:55:53: 5000000 INFO @ Sat, 11 Dec 2021 15:55:57: 1000000 INFO @ Sat, 11 Dec 2021 15:55:59: 10000000 INFO @ Sat, 11 Dec 2021 15:56:00: 6000000 INFO @ Sat, 11 Dec 2021 15:56:04: 2000000 INFO @ Sat, 11 Dec 2021 15:56:07: 7000000 INFO @ Sat, 11 Dec 2021 15:56:07: 11000000 INFO @ Sat, 11 Dec 2021 15:56:11: 3000000 INFO @ Sat, 11 Dec 2021 15:56:13: 8000000 INFO @ Sat, 11 Dec 2021 15:56:14: 12000000 INFO @ Sat, 11 Dec 2021 15:56:17: 4000000 INFO @ Sat, 11 Dec 2021 15:56:21: 9000000 INFO @ Sat, 11 Dec 2021 15:56:22: 13000000 INFO @ Sat, 11 Dec 2021 15:56:24: 5000000 INFO @ Sat, 11 Dec 2021 15:56:28: 10000000 INFO @ Sat, 11 Dec 2021 15:56:29: 14000000 INFO @ Sat, 11 Dec 2021 15:56:31: 6000000 INFO @ Sat, 11 Dec 2021 15:56:34: 11000000 INFO @ Sat, 11 Dec 2021 15:56:37: 15000000 INFO @ Sat, 11 Dec 2021 15:56:37: 7000000 INFO @ Sat, 11 Dec 2021 15:56:41: 12000000 INFO @ Sat, 11 Dec 2021 15:56:44: 8000000 INFO @ Sat, 11 Dec 2021 15:56:44: 16000000 INFO @ Sat, 11 Dec 2021 15:56:48: 13000000 INFO @ Sat, 11 Dec 2021 15:56:51: 9000000 INFO @ Sat, 11 Dec 2021 15:56:52: 17000000 INFO @ Sat, 11 Dec 2021 15:56:54: 14000000 INFO @ Sat, 11 Dec 2021 15:56:58: 10000000 INFO @ Sat, 11 Dec 2021 15:56:59: 18000000 INFO @ Sat, 11 Dec 2021 15:57:01: 15000000 INFO @ Sat, 11 Dec 2021 15:57:05: 11000000 INFO @ Sat, 11 Dec 2021 15:57:06: 19000000 INFO @ Sat, 11 Dec 2021 15:57:08: 16000000 INFO @ Sat, 11 Dec 2021 15:57:11: 12000000 INFO @ Sat, 11 Dec 2021 15:57:14: 20000000 INFO @ Sat, 11 Dec 2021 15:57:15: 17000000 INFO @ Sat, 11 Dec 2021 15:57:18: 13000000 INFO @ Sat, 11 Dec 2021 15:57:21: 21000000 INFO @ Sat, 11 Dec 2021 15:57:21: 18000000 INFO @ Sat, 11 Dec 2021 15:57:25: 14000000 INFO @ Sat, 11 Dec 2021 15:57:28: 19000000 INFO @ Sat, 11 Dec 2021 15:57:29: 22000000 INFO @ Sat, 11 Dec 2021 15:57:31: 15000000 INFO @ Sat, 11 Dec 2021 15:57:35: 20000000 INFO @ Sat, 11 Dec 2021 15:57:36: 23000000 INFO @ Sat, 11 Dec 2021 15:57:38: 16000000 INFO @ Sat, 11 Dec 2021 15:57:42: 21000000 INFO @ Sat, 11 Dec 2021 15:57:43: 24000000 INFO @ Sat, 11 Dec 2021 15:57:45: 17000000 INFO @ Sat, 11 Dec 2021 15:57:49: 22000000 INFO @ Sat, 11 Dec 2021 15:57:51: 25000000 INFO @ Sat, 11 Dec 2021 15:57:52: 18000000 INFO @ Sat, 11 Dec 2021 15:57:55: 23000000 INFO @ Sat, 11 Dec 2021 15:57:58: 26000000 INFO @ Sat, 11 Dec 2021 15:57:59: 19000000 INFO @ Sat, 11 Dec 2021 15:58:02: 24000000 INFO @ Sat, 11 Dec 2021 15:58:05: 27000000 INFO @ Sat, 11 Dec 2021 15:58:06: 20000000 INFO @ Sat, 11 Dec 2021 15:58:09: 25000000 INFO @ Sat, 11 Dec 2021 15:58:12: 28000000 INFO @ Sat, 11 Dec 2021 15:58:12: 21000000 INFO @ Sat, 11 Dec 2021 15:58:16: 26000000 INFO @ Sat, 11 Dec 2021 15:58:19: 29000000 INFO @ Sat, 11 Dec 2021 15:58:19: 22000000 INFO @ Sat, 11 Dec 2021 15:58:23: 27000000 INFO @ Sat, 11 Dec 2021 15:58:26: 23000000 INFO @ Sat, 11 Dec 2021 15:58:27: 30000000 INFO @ Sat, 11 Dec 2021 15:58:30: 28000000 INFO @ Sat, 11 Dec 2021 15:58:32: 24000000 INFO @ Sat, 11 Dec 2021 15:58:34: 31000000 INFO @ Sat, 11 Dec 2021 15:58:37: 29000000 INFO @ Sat, 11 Dec 2021 15:58:39: 25000000 INFO @ Sat, 11 Dec 2021 15:58:41: 32000000 INFO @ Sat, 11 Dec 2021 15:58:44: 30000000 INFO @ Sat, 11 Dec 2021 15:58:46: 26000000 INFO @ Sat, 11 Dec 2021 15:58:49: 33000000 INFO @ Sat, 11 Dec 2021 15:58:51: 31000000 INFO @ Sat, 11 Dec 2021 15:58:53: 27000000 INFO @ Sat, 11 Dec 2021 15:58:56: 34000000 INFO @ Sat, 11 Dec 2021 15:58:57: 32000000 INFO @ Sat, 11 Dec 2021 15:59:00: 28000000 INFO @ Sat, 11 Dec 2021 15:59:03: 35000000 INFO @ Sat, 11 Dec 2021 15:59:04: 33000000 INFO @ Sat, 11 Dec 2021 15:59:07: 29000000 INFO @ Sat, 11 Dec 2021 15:59:11: 34000000 INFO @ Sat, 11 Dec 2021 15:59:11: 36000000 INFO @ Sat, 11 Dec 2021 15:59:14: 30000000 INFO @ Sat, 11 Dec 2021 15:59:17: 35000000 INFO @ Sat, 11 Dec 2021 15:59:18: 37000000 INFO @ Sat, 11 Dec 2021 15:59:20: 31000000 INFO @ Sat, 11 Dec 2021 15:59:24: 36000000 INFO @ Sat, 11 Dec 2021 15:59:26: 38000000 INFO @ Sat, 11 Dec 2021 15:59:27: 32000000 INFO @ Sat, 11 Dec 2021 15:59:31: 37000000 INFO @ Sat, 11 Dec 2021 15:59:33: 39000000 INFO @ Sat, 11 Dec 2021 15:59:34: 33000000 INFO @ Sat, 11 Dec 2021 15:59:37: 38000000 INFO @ Sat, 11 Dec 2021 15:59:40: 34000000 INFO @ Sat, 11 Dec 2021 15:59:41: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 15:59:44: 39000000 INFO @ Sat, 11 Dec 2021 15:59:47: 35000000 INFO @ Sat, 11 Dec 2021 15:59:48: 41000000 INFO @ Sat, 11 Dec 2021 15:59:51: 40000000 INFO @ Sat, 11 Dec 2021 15:59:54: 36000000 INFO @ Sat, 11 Dec 2021 15:59:55: 42000000 INFO @ Sat, 11 Dec 2021 15:59:58: 41000000 INFO @ Sat, 11 Dec 2021 16:00:01: 37000000 INFO @ Sat, 11 Dec 2021 16:00:03: 43000000 INFO @ Sat, 11 Dec 2021 16:00:04: 42000000 INFO @ Sat, 11 Dec 2021 16:00:07: 38000000 INFO @ Sat, 11 Dec 2021 16:00:10: 44000000 INFO @ Sat, 11 Dec 2021 16:00:10: 43000000 INFO @ Sat, 11 Dec 2021 16:00:14: 39000000 INFO @ Sat, 11 Dec 2021 16:00:16: 44000000 INFO @ Sat, 11 Dec 2021 16:00:18: 45000000 INFO @ Sat, 11 Dec 2021 16:00:21: 40000000 INFO @ Sat, 11 Dec 2021 16:00:23: 45000000 INFO @ Sat, 11 Dec 2021 16:00:25: 46000000 INFO @ Sat, 11 Dec 2021 16:00:27: 41000000 INFO @ Sat, 11 Dec 2021 16:00:29: 46000000 INFO @ Sat, 11 Dec 2021 16:00:32: 47000000 INFO @ Sat, 11 Dec 2021 16:00:34: 42000000 INFO @ Sat, 11 Dec 2021 16:00:36: 47000000 INFO @ Sat, 11 Dec 2021 16:00:39: 48000000 INFO @ Sat, 11 Dec 2021 16:00:40: 43000000 INFO @ Sat, 11 Dec 2021 16:00:42: 48000000 INFO @ Sat, 11 Dec 2021 16:00:46: 49000000 INFO @ Sat, 11 Dec 2021 16:00:46: 44000000 INFO @ Sat, 11 Dec 2021 16:00:48: 49000000 INFO @ Sat, 11 Dec 2021 16:00:53: 45000000 INFO @ Sat, 11 Dec 2021 16:00:54: 50000000 INFO @ Sat, 11 Dec 2021 16:00:55: 50000000 INFO @ Sat, 11 Dec 2021 16:00:59: 46000000 INFO @ Sat, 11 Dec 2021 16:01:01: 51000000 INFO @ Sat, 11 Dec 2021 16:01:02: 51000000 INFO @ Sat, 11 Dec 2021 16:01:06: 47000000 BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 16:01:09: 52000000 INFO @ Sat, 11 Dec 2021 16:01:09: 52000000 INFO @ Sat, 11 Dec 2021 16:01:12: 48000000 INFO @ Sat, 11 Dec 2021 16:01:16: 53000000 INFO @ Sat, 11 Dec 2021 16:01:17: 53000000 INFO @ Sat, 11 Dec 2021 16:01:18: 49000000 INFO @ Sat, 11 Dec 2021 16:01:24: 54000000 INFO @ Sat, 11 Dec 2021 16:01:25: 54000000 INFO @ Sat, 11 Dec 2021 16:01:25: 50000000 INFO @ Sat, 11 Dec 2021 16:01:32: 51000000 INFO @ Sat, 11 Dec 2021 16:01:32: 55000000 INFO @ Sat, 11 Dec 2021 16:01:33: 55000000 INFO @ Sat, 11 Dec 2021 16:01:38: 52000000 INFO @ Sat, 11 Dec 2021 16:01:39: 56000000 INFO @ Sat, 11 Dec 2021 16:01:40: 56000000 INFO @ Sat, 11 Dec 2021 16:01:45: 53000000 INFO @ Sat, 11 Dec 2021 16:01:47: 57000000 INFO @ Sat, 11 Dec 2021 16:01:48: 57000000 INFO @ Sat, 11 Dec 2021 16:01:52: 54000000 INFO @ Sat, 11 Dec 2021 16:01:55: 58000000 INFO @ Sat, 11 Dec 2021 16:01:55: 58000000 INFO @ Sat, 11 Dec 2021 16:01:58: 55000000 INFO @ Sat, 11 Dec 2021 16:02:02: 59000000 INFO @ Sat, 11 Dec 2021 16:02:03: 59000000 INFO @ Sat, 11 Dec 2021 16:02:05: 56000000 INFO @ Sat, 11 Dec 2021 16:02:10: 60000000 INFO @ Sat, 11 Dec 2021 16:02:10: 60000000 INFO @ Sat, 11 Dec 2021 16:02:11: 57000000 INFO @ Sat, 11 Dec 2021 16:02:18: 58000000 INFO @ Sat, 11 Dec 2021 16:02:18: 61000000 INFO @ Sat, 11 Dec 2021 16:02:18: 61000000 INFO @ Sat, 11 Dec 2021 16:02:24: 59000000 INFO @ Sat, 11 Dec 2021 16:02:26: 62000000 INFO @ Sat, 11 Dec 2021 16:02:26: 62000000 INFO @ Sat, 11 Dec 2021 16:02:31: 60000000 INFO @ Sat, 11 Dec 2021 16:02:34: 63000000 INFO @ Sat, 11 Dec 2021 16:02:34: 63000000 INFO @ Sat, 11 Dec 2021 16:02:37: 61000000 INFO @ Sat, 11 Dec 2021 16:02:41: 64000000 INFO @ Sat, 11 Dec 2021 16:02:42: 64000000 INFO @ Sat, 11 Dec 2021 16:02:44: 62000000 INFO @ Sat, 11 Dec 2021 16:02:44: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 16:02:44: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 16:02:44: #1 total tags in treatment: 24356361 INFO @ Sat, 11 Dec 2021 16:02:44: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:02:44: #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 16:02:45: #1 tags after filtering in treatment: 17973281 INFO @ Sat, 11 Dec 2021 16:02:45: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 11 Dec 2021 16:02:45: #1 finished! INFO @ Sat, 11 Dec 2021 16:02:45: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:02:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:02:46: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 16:02:46: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 16:02:46: #1 total tags in treatment: 24356361 INFO @ Sat, 11 Dec 2021 16:02:46: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:02:46: #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 16:02:46: #2 number of paired peaks: 125 WARNING @ Sat, 11 Dec 2021 16:02:46: Fewer paired peaks (125) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 125 pairs to build model! INFO @ Sat, 11 Dec 2021 16:02:46: start model_add_line... INFO @ Sat, 11 Dec 2021 16:02:46: start X-correlation... INFO @ Sat, 11 Dec 2021 16:02:46: end of X-cor INFO @ Sat, 11 Dec 2021 16:02:46: #2 finished! INFO @ Sat, 11 Dec 2021 16:02:46: #2 predicted fragment length is 56 bps INFO @ Sat, 11 Dec 2021 16:02:46: #2 alternative fragment length(s) may be 2,56,98,125,128,137,144,459,509,531,554,560,588 bps INFO @ Sat, 11 Dec 2021 16:02:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10_model.r INFO @ Sat, 11 Dec 2021 16:02:46: #1 tags after filtering in treatment: 17973281 INFO @ Sat, 11 Dec 2021 16:02:46: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 11 Dec 2021 16:02:46: #1 finished! INFO @ Sat, 11 Dec 2021 16:02:46: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:02:46: #2 looking for paired plus/minus strand peaks... WARNING @ Sat, 11 Dec 2021 16:02:46: #2 Since the d (56) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 16:02:46: #2 You may need to consider one of the other alternative d(s): 2,56,98,125,128,137,144,459,509,531,554,560,588 WARNING @ Sat, 11 Dec 2021 16:02:46: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 16:02:46: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:02:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:02:47: #2 number of paired peaks: 125 WARNING @ Sat, 11 Dec 2021 16:02:47: Fewer paired peaks (125) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 125 pairs to build model! INFO @ Sat, 11 Dec 2021 16:02:47: start model_add_line... INFO @ Sat, 11 Dec 2021 16:02:47: start X-correlation... INFO @ Sat, 11 Dec 2021 16:02:47: end of X-cor INFO @ Sat, 11 Dec 2021 16:02:47: #2 finished! INFO @ Sat, 11 Dec 2021 16:02:47: #2 predicted fragment length is 56 bps INFO @ Sat, 11 Dec 2021 16:02:47: #2 alternative fragment length(s) may be 2,56,98,125,128,137,144,459,509,531,554,560,588 bps INFO @ Sat, 11 Dec 2021 16:02:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05_model.r WARNING @ Sat, 11 Dec 2021 16:02:48: #2 Since the d (56) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 16:02:48: #2 You may need to consider one of the other alternative d(s): 2,56,98,125,128,137,144,459,509,531,554,560,588 WARNING @ Sat, 11 Dec 2021 16:02:48: #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 16:02:48: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:02:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:02:50: 63000000 INFO @ Sat, 11 Dec 2021 16:02:56: 64000000 INFO @ Sat, 11 Dec 2021 16:02:59: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 16:02:59: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 16:02:59: #1 total tags in treatment: 24356361 INFO @ Sat, 11 Dec 2021 16:02:59: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 16:02:59: #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 16:02:59: #1 tags after filtering in treatment: 17973281 INFO @ Sat, 11 Dec 2021 16:02:59: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 11 Dec 2021 16:02:59: #1 finished! INFO @ Sat, 11 Dec 2021 16:02:59: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 16:02:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 16:03:00: #2 number of paired peaks: 125 WARNING @ Sat, 11 Dec 2021 16:03:00: Fewer paired peaks (125) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 125 pairs to build model! INFO @ Sat, 11 Dec 2021 16:03:00: start model_add_line... INFO @ Sat, 11 Dec 2021 16:03:00: start X-correlation... INFO @ Sat, 11 Dec 2021 16:03:00: end of X-cor INFO @ Sat, 11 Dec 2021 16:03:00: #2 finished! INFO @ Sat, 11 Dec 2021 16:03:00: #2 predicted fragment length is 56 bps INFO @ Sat, 11 Dec 2021 16:03:00: #2 alternative fragment length(s) may be 2,56,98,125,128,137,144,459,509,531,554,560,588 bps INFO @ Sat, 11 Dec 2021 16:03:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20_model.r WARNING @ Sat, 11 Dec 2021 16:03:01: #2 Since the d (56) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 16:03:01: #2 You may need to consider one of the other alternative d(s): 2,56,98,125,128,137,144,459,509,531,554,560,588 WARNING @ Sat, 11 Dec 2021 16:03:01: #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 16:03:01: #3 Call peaks... INFO @ Sat, 11 Dec 2021 16:03:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 16:03:18: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:03:20: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:03:33: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 16:03:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10_peaks.xls INFO @ Sat, 11 Dec 2021 16:03:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:03:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.10_summits.bed INFO @ Sat, 11 Dec 2021 16:03:35: Done! pass1 - making usageList (14 chroms): 1 millis pass2 - checking and writing primary data (1960 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:03:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05_peaks.xls INFO @ Sat, 11 Dec 2021 16:03:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:03:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.05_summits.bed INFO @ Sat, 11 Dec 2021 16:03:37: Done! pass1 - making usageList (15 chroms): 1 millis pass2 - checking and writing primary data (6684 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 16:03:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20_peaks.xls INFO @ Sat, 11 Dec 2021 16:03:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 16:03:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX9103829/SRX9103829.20_summits.bed INFO @ Sat, 11 Dec 2021 16:03:50: Done! pass1 - making usageList (9 chroms): 0 millis pass2 - checking and writing primary data (171 records, 4 fields): 1 millis CompletedMACS2peakCalling