Job ID = 6367203 SRX = SRX2978707 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-15T23:25:36 prefetch.2.10.7: 1) Downloading 'SRR5799214'... 2020-06-15T23:25:36 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:32:43 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:32:43 prefetch.2.10.7: 1) 'SRR5799214' was downloaded successfully 2020-06-15T23:32:43 prefetch.2.10.7: 'SRR5799214' has 0 unresolved dependencies Read 30618210 spots for SRR5799214/SRR5799214.sra Written 30618210 spots for SRR5799214/SRR5799214.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: 00:25:52 30618210 reads; of these: 30618210 (100.00%) were paired; of these: 1501249 (4.90%) aligned concordantly 0 times 24460698 (79.89%) aligned concordantly exactly 1 time 4656263 (15.21%) aligned concordantly >1 times ---- 1501249 pairs aligned concordantly 0 times; of these: 504551 (33.61%) aligned discordantly 1 time ---- 996698 pairs aligned 0 times concordantly or discordantly; of these: 1993396 mates make up the pairs; of these: 1451580 (72.82%) aligned 0 times 333948 (16.75%) aligned exactly 1 time 207868 (10.43%) aligned >1 times 97.63% overall alignment rate Time searching: 00:25:52 Overall time: 00:25:52 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 28 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] 783886 / 29598610 = 0.0265 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 09:17:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.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 09:17:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:17:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:17:48: 1000000 INFO @ Tue, 16 Jun 2020 09:17:54: 2000000 INFO @ Tue, 16 Jun 2020 09:18:00: 3000000 INFO @ Tue, 16 Jun 2020 09:18:06: 4000000 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 09:18:12: 5000000 INFO @ Tue, 16 Jun 2020 09:18:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.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 09:18:12: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:18:12: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:18:18: 1000000 INFO @ Tue, 16 Jun 2020 09:18:18: 6000000 INFO @ Tue, 16 Jun 2020 09:18:24: 2000000 INFO @ Tue, 16 Jun 2020 09:18:25: 7000000 INFO @ Tue, 16 Jun 2020 09:18:29: 3000000 INFO @ Tue, 16 Jun 2020 09:18:32: 8000000 INFO @ Tue, 16 Jun 2020 09:18:35: 4000000 INFO @ Tue, 16 Jun 2020 09:18:38: 9000000 INFO @ Tue, 16 Jun 2020 09:18:40: 5000000 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 09:18:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.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 09:18:42: #1 read tag files... INFO @ Tue, 16 Jun 2020 09:18:42: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 09:18:45: 10000000 INFO @ Tue, 16 Jun 2020 09:18:46: 6000000 INFO @ Tue, 16 Jun 2020 09:18:48: 1000000 INFO @ Tue, 16 Jun 2020 09:18:52: 11000000 INFO @ Tue, 16 Jun 2020 09:18:52: 7000000 INFO @ Tue, 16 Jun 2020 09:18:54: 2000000 INFO @ Tue, 16 Jun 2020 09:18:58: 8000000 INFO @ Tue, 16 Jun 2020 09:18:58: 12000000 INFO @ Tue, 16 Jun 2020 09:19:00: 3000000 INFO @ Tue, 16 Jun 2020 09:19:03: 9000000 INFO @ Tue, 16 Jun 2020 09:19:05: 13000000 INFO @ Tue, 16 Jun 2020 09:19:06: 4000000 INFO @ Tue, 16 Jun 2020 09:19:09: 10000000 INFO @ Tue, 16 Jun 2020 09:19:11: 5000000 INFO @ Tue, 16 Jun 2020 09:19:12: 14000000 INFO @ Tue, 16 Jun 2020 09:19:15: 11000000 INFO @ Tue, 16 Jun 2020 09:19:17: 6000000 INFO @ Tue, 16 Jun 2020 09:19:18: 15000000 INFO @ Tue, 16 Jun 2020 09:19:20: 12000000 INFO @ Tue, 16 Jun 2020 09:19:23: 7000000 INFO @ Tue, 16 Jun 2020 09:19:25: 16000000 INFO @ Tue, 16 Jun 2020 09:19:26: 13000000 INFO @ Tue, 16 Jun 2020 09:19:28: 8000000 INFO @ Tue, 16 Jun 2020 09:19:31: 17000000 INFO @ Tue, 16 Jun 2020 09:19:32: 14000000 INFO @ Tue, 16 Jun 2020 09:19:34: 9000000 INFO @ Tue, 16 Jun 2020 09:19:38: 15000000 INFO @ Tue, 16 Jun 2020 09:19:38: 18000000 INFO @ Tue, 16 Jun 2020 09:19:40: 10000000 INFO @ Tue, 16 Jun 2020 09:19:43: 16000000 INFO @ Tue, 16 Jun 2020 09:19:45: 19000000 INFO @ Tue, 16 Jun 2020 09:19:45: 11000000 INFO @ Tue, 16 Jun 2020 09:19:49: 17000000 INFO @ Tue, 16 Jun 2020 09:19:51: 20000000 INFO @ Tue, 16 Jun 2020 09:19:51: 12000000 INFO @ Tue, 16 Jun 2020 09:19:55: 18000000 INFO @ Tue, 16 Jun 2020 09:19:57: 13000000 INFO @ Tue, 16 Jun 2020 09:19:57: 21000000 INFO @ Tue, 16 Jun 2020 09:20:00: 19000000 INFO @ Tue, 16 Jun 2020 09:20:03: 14000000 INFO @ Tue, 16 Jun 2020 09:20:03: 22000000 INFO @ Tue, 16 Jun 2020 09:20:06: 20000000 INFO @ Tue, 16 Jun 2020 09:20:08: 15000000 INFO @ Tue, 16 Jun 2020 09:20:10: 23000000 INFO @ Tue, 16 Jun 2020 09:20:12: 21000000 INFO @ Tue, 16 Jun 2020 09:20:14: 16000000 INFO @ Tue, 16 Jun 2020 09:20:16: 24000000 INFO @ Tue, 16 Jun 2020 09:20:18: 22000000 INFO @ Tue, 16 Jun 2020 09:20:19: 17000000 INFO @ Tue, 16 Jun 2020 09:20:22: 25000000 INFO @ Tue, 16 Jun 2020 09:20:23: 23000000 INFO @ Tue, 16 Jun 2020 09:20:25: 18000000 INFO @ Tue, 16 Jun 2020 09:20:28: 26000000 INFO @ Tue, 16 Jun 2020 09:20:29: 24000000 INFO @ Tue, 16 Jun 2020 09:20:31: 19000000 INFO @ Tue, 16 Jun 2020 09:20:34: 25000000 INFO @ Tue, 16 Jun 2020 09:20:35: 27000000 INFO @ Tue, 16 Jun 2020 09:20:36: 20000000 INFO @ Tue, 16 Jun 2020 09:20:40: 26000000 INFO @ Tue, 16 Jun 2020 09:20:41: 28000000 INFO @ Tue, 16 Jun 2020 09:20:42: 21000000 INFO @ Tue, 16 Jun 2020 09:20:46: 27000000 INFO @ Tue, 16 Jun 2020 09:20:47: 29000000 INFO @ Tue, 16 Jun 2020 09:20:48: 22000000 INFO @ Tue, 16 Jun 2020 09:20:51: 28000000 INFO @ Tue, 16 Jun 2020 09:20:53: 23000000 INFO @ Tue, 16 Jun 2020 09:20:54: 30000000 INFO @ Tue, 16 Jun 2020 09:20:57: 29000000 INFO @ Tue, 16 Jun 2020 09:20:59: 24000000 INFO @ Tue, 16 Jun 2020 09:21:00: 31000000 INFO @ Tue, 16 Jun 2020 09:21:03: 30000000 INFO @ Tue, 16 Jun 2020 09:21:04: 25000000 INFO @ Tue, 16 Jun 2020 09:21:07: 32000000 INFO @ Tue, 16 Jun 2020 09:21:08: 31000000 INFO @ Tue, 16 Jun 2020 09:21:10: 26000000 INFO @ Tue, 16 Jun 2020 09:21:13: 33000000 INFO @ Tue, 16 Jun 2020 09:21:14: 32000000 INFO @ Tue, 16 Jun 2020 09:21:16: 27000000 INFO @ Tue, 16 Jun 2020 09:21:19: 33000000 INFO @ Tue, 16 Jun 2020 09:21:20: 34000000 INFO @ Tue, 16 Jun 2020 09:21:21: 28000000 INFO @ Tue, 16 Jun 2020 09:21:25: 34000000 INFO @ Tue, 16 Jun 2020 09:21:26: 35000000 INFO @ Tue, 16 Jun 2020 09:21:27: 29000000 INFO @ Tue, 16 Jun 2020 09:21:31: 35000000 INFO @ Tue, 16 Jun 2020 09:21:32: 36000000 INFO @ Tue, 16 Jun 2020 09:21:32: 30000000 INFO @ Tue, 16 Jun 2020 09:21:36: 36000000 INFO @ Tue, 16 Jun 2020 09:21:38: 31000000 INFO @ Tue, 16 Jun 2020 09:21:38: 37000000 INFO @ Tue, 16 Jun 2020 09:21:42: 37000000 INFO @ Tue, 16 Jun 2020 09:21:43: 32000000 INFO @ Tue, 16 Jun 2020 09:21:44: 38000000 INFO @ Tue, 16 Jun 2020 09:21:47: 38000000 INFO @ Tue, 16 Jun 2020 09:21:49: 33000000 INFO @ Tue, 16 Jun 2020 09:21:51: 39000000 INFO @ Tue, 16 Jun 2020 09:21:53: 39000000 INFO @ Tue, 16 Jun 2020 09:21:54: 34000000 INFO @ Tue, 16 Jun 2020 09:21:57: 40000000 INFO @ Tue, 16 Jun 2020 09:21:58: 40000000 INFO @ Tue, 16 Jun 2020 09:22:00: 35000000 INFO @ Tue, 16 Jun 2020 09:22:03: 41000000 INFO @ Tue, 16 Jun 2020 09:22:04: 41000000 INFO @ Tue, 16 Jun 2020 09:22:05: 36000000 INFO @ Tue, 16 Jun 2020 09:22:10: 42000000 INFO @ Tue, 16 Jun 2020 09:22:10: 42000000 INFO @ Tue, 16 Jun 2020 09:22:11: 37000000 INFO @ Tue, 16 Jun 2020 09:22:16: 38000000 INFO @ Tue, 16 Jun 2020 09:22:16: 43000000 INFO @ Tue, 16 Jun 2020 09:22:17: 43000000 INFO @ Tue, 16 Jun 2020 09:22:21: 39000000 INFO @ Tue, 16 Jun 2020 09:22:23: 44000000 INFO @ Tue, 16 Jun 2020 09:22:24: 44000000 INFO @ Tue, 16 Jun 2020 09:22:27: 40000000 INFO @ Tue, 16 Jun 2020 09:22:31: 45000000 INFO @ Tue, 16 Jun 2020 09:22:31: 45000000 INFO @ Tue, 16 Jun 2020 09:22:32: 41000000 INFO @ Tue, 16 Jun 2020 09:22:36: 46000000 INFO @ Tue, 16 Jun 2020 09:22:38: 46000000 INFO @ Tue, 16 Jun 2020 09:22:38: 42000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 09:22:42: 47000000 INFO @ Tue, 16 Jun 2020 09:22:43: 43000000 INFO @ Tue, 16 Jun 2020 09:22:44: 47000000 INFO @ Tue, 16 Jun 2020 09:22:47: 48000000 INFO @ Tue, 16 Jun 2020 09:22:49: 44000000 INFO @ Tue, 16 Jun 2020 09:22:51: 48000000 INFO @ Tue, 16 Jun 2020 09:22:53: 49000000 INFO @ Tue, 16 Jun 2020 09:22:54: 45000000 INFO @ Tue, 16 Jun 2020 09:22:58: 49000000 INFO @ Tue, 16 Jun 2020 09:22:59: 50000000 INFO @ Tue, 16 Jun 2020 09:23:00: 46000000 INFO @ Tue, 16 Jun 2020 09:23:04: 51000000 INFO @ Tue, 16 Jun 2020 09:23:04: 50000000 INFO @ Tue, 16 Jun 2020 09:23:05: 47000000 INFO @ Tue, 16 Jun 2020 09:23:09: 52000000 INFO @ Tue, 16 Jun 2020 09:23:10: 48000000 INFO @ Tue, 16 Jun 2020 09:23:11: 51000000 INFO @ Tue, 16 Jun 2020 09:23:15: 53000000 INFO @ Tue, 16 Jun 2020 09:23:16: 49000000 INFO @ Tue, 16 Jun 2020 09:23:17: 52000000 INFO @ Tue, 16 Jun 2020 09:23:20: 54000000 INFO @ Tue, 16 Jun 2020 09:23:21: 50000000 INFO @ Tue, 16 Jun 2020 09:23:24: 53000000 INFO @ Tue, 16 Jun 2020 09:23:26: 55000000 INFO @ Tue, 16 Jun 2020 09:23:27: 51000000 INFO @ Tue, 16 Jun 2020 09:23:31: 54000000 INFO @ Tue, 16 Jun 2020 09:23:31: 56000000 INFO @ Tue, 16 Jun 2020 09:23:32: 52000000 INFO @ Tue, 16 Jun 2020 09:23:37: 57000000 INFO @ Tue, 16 Jun 2020 09:23:37: 55000000 INFO @ Tue, 16 Jun 2020 09:23:38: 53000000 INFO @ Tue, 16 Jun 2020 09:23:42: 58000000 INFO @ Tue, 16 Jun 2020 09:23:43: 54000000 INFO @ Tue, 16 Jun 2020 09:23:44: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:23:44: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:23:44: #1 total tags in treatment: 28335496 INFO @ Tue, 16 Jun 2020 09:23:44: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:23:44: #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 09:23:44: 56000000 INFO @ Tue, 16 Jun 2020 09:23:44: #1 tags after filtering in treatment: 24255834 INFO @ Tue, 16 Jun 2020 09:23:44: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 09:23:44: #1 finished! INFO @ Tue, 16 Jun 2020 09:23:44: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:23:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:23:46: #2 number of paired peaks: 169 WARNING @ Tue, 16 Jun 2020 09:23:46: Fewer paired peaks (169) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 169 pairs to build model! INFO @ Tue, 16 Jun 2020 09:23:46: start model_add_line... INFO @ Tue, 16 Jun 2020 09:23:46: start X-correlation... INFO @ Tue, 16 Jun 2020 09:23:46: end of X-cor INFO @ Tue, 16 Jun 2020 09:23:46: #2 finished! INFO @ Tue, 16 Jun 2020 09:23:46: #2 predicted fragment length is 51 bps INFO @ Tue, 16 Jun 2020 09:23:46: #2 alternative fragment length(s) may be 2,51,109,113 bps INFO @ Tue, 16 Jun 2020 09:23:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10_model.r WARNING @ Tue, 16 Jun 2020 09:23:46: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 09:23:46: #2 You may need to consider one of the other alternative d(s): 2,51,109,113 WARNING @ Tue, 16 Jun 2020 09:23:46: #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 09:23:46: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:23:46: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:23:49: 55000000 INFO @ Tue, 16 Jun 2020 09:23:50: 57000000 INFO @ Tue, 16 Jun 2020 09:23:54: 56000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 09:23:57: 58000000 INFO @ Tue, 16 Jun 2020 09:23:59: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:23:59: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:23:59: #1 total tags in treatment: 28335496 INFO @ Tue, 16 Jun 2020 09:23:59: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:23:59: #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 09:23:59: #1 tags after filtering in treatment: 24255834 INFO @ Tue, 16 Jun 2020 09:23:59: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 09:23:59: #1 finished! INFO @ Tue, 16 Jun 2020 09:23:59: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:23:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:24:00: 57000000 INFO @ Tue, 16 Jun 2020 09:24:01: #2 number of paired peaks: 169 WARNING @ Tue, 16 Jun 2020 09:24:01: Fewer paired peaks (169) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 169 pairs to build model! INFO @ Tue, 16 Jun 2020 09:24:01: start model_add_line... INFO @ Tue, 16 Jun 2020 09:24:01: start X-correlation... INFO @ Tue, 16 Jun 2020 09:24:01: end of X-cor INFO @ Tue, 16 Jun 2020 09:24:01: #2 finished! INFO @ Tue, 16 Jun 2020 09:24:01: #2 predicted fragment length is 51 bps INFO @ Tue, 16 Jun 2020 09:24:01: #2 alternative fragment length(s) may be 2,51,109,113 bps INFO @ Tue, 16 Jun 2020 09:24:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05_model.r WARNING @ Tue, 16 Jun 2020 09:24:01: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 09:24:01: #2 You may need to consider one of the other alternative d(s): 2,51,109,113 WARNING @ Tue, 16 Jun 2020 09:24:01: #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 09:24:01: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:24:01: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:24:05: 58000000 INFO @ Tue, 16 Jun 2020 09:24:06: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 09:24:06: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 09:24:06: #1 total tags in treatment: 28335496 INFO @ Tue, 16 Jun 2020 09:24:06: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 09:24:06: #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 09:24:06: #1 tags after filtering in treatment: 24255834 INFO @ Tue, 16 Jun 2020 09:24:06: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 16 Jun 2020 09:24:06: #1 finished! INFO @ Tue, 16 Jun 2020 09:24:06: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 09:24:06: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 09:24:08: #2 number of paired peaks: 169 WARNING @ Tue, 16 Jun 2020 09:24:08: Fewer paired peaks (169) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 169 pairs to build model! INFO @ Tue, 16 Jun 2020 09:24:08: start model_add_line... INFO @ Tue, 16 Jun 2020 09:24:08: start X-correlation... INFO @ Tue, 16 Jun 2020 09:24:08: end of X-cor INFO @ Tue, 16 Jun 2020 09:24:08: #2 finished! INFO @ Tue, 16 Jun 2020 09:24:08: #2 predicted fragment length is 51 bps INFO @ Tue, 16 Jun 2020 09:24:08: #2 alternative fragment length(s) may be 2,51,109,113 bps INFO @ Tue, 16 Jun 2020 09:24:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20_model.r WARNING @ Tue, 16 Jun 2020 09:24:08: #2 Since the d (51) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 09:24:08: #2 You may need to consider one of the other alternative d(s): 2,51,109,113 WARNING @ Tue, 16 Jun 2020 09:24:08: #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 09:24:08: #3 Call peaks... INFO @ Tue, 16 Jun 2020 09:24:08: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 09:24:23: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:24:40: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:24:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10_peaks.xls INFO @ Tue, 16 Jun 2020 09:24:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:24:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.10_summits.bed INFO @ Tue, 16 Jun 2020 09:24:42: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (406 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:24:46: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 09:24:59: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05_peaks.xls INFO @ Tue, 16 Jun 2020 09:24:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:24:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.05_summits.bed INFO @ Tue, 16 Jun 2020 09:24:59: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2383 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 09:25:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20_peaks.xls INFO @ Tue, 16 Jun 2020 09:25:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 09:25:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2978707/SRX2978707.20_summits.bed INFO @ Tue, 16 Jun 2020 09:25:05: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (128 records, 4 fields): 1 millis CompletedMACS2peakCalling