Job ID = 6367211 SRX = SRX2985937 Genome = ce11 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-15T23:23:01 prefetch.2.10.7: 1) Downloading 'SRR5807087'... 2020-06-15T23:23:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T23:49:35 prefetch.2.10.7: HTTPS download succeed 2020-06-15T23:49:35 prefetch.2.10.7: 1) 'SRR5807087' was downloaded successfully Read 39983162 spots for SRR5807087/SRR5807087.sra Written 39983162 spots for SRR5807087/SRR5807087.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: 01:04:39 39983162 reads; of these: 39983162 (100.00%) were paired; of these: 847908 (2.12%) aligned concordantly 0 times 33613157 (84.07%) aligned concordantly exactly 1 time 5522097 (13.81%) aligned concordantly >1 times ---- 847908 pairs aligned concordantly 0 times; of these: 64180 (7.57%) aligned discordantly 1 time ---- 783728 pairs aligned 0 times concordantly or discordantly; of these: 1567456 mates make up the pairs; of these: 967343 (61.71%) aligned 0 times 438995 (28.01%) aligned exactly 1 time 161118 (10.28%) aligned >1 times 98.79% overall alignment rate Time searching: 01:04:39 Overall time: 01:04:39 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 36 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] 6240122 / 39153713 = 0.1594 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 10:33:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.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 10:33:06: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:33:06: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:33:14: 1000000 INFO @ Tue, 16 Jun 2020 10:33:21: 2000000 INFO @ Tue, 16 Jun 2020 10:33:27: 3000000 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 10:33:34: 4000000 INFO @ Tue, 16 Jun 2020 10:33:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.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 10:33:36: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:33:36: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:33:41: 5000000 INFO @ Tue, 16 Jun 2020 10:33:43: 1000000 INFO @ Tue, 16 Jun 2020 10:33:47: 6000000 INFO @ Tue, 16 Jun 2020 10:33:50: 2000000 INFO @ Tue, 16 Jun 2020 10:33:54: 7000000 INFO @ Tue, 16 Jun 2020 10:33:56: 3000000 INFO @ Tue, 16 Jun 2020 10:34:00: 8000000 INFO @ Tue, 16 Jun 2020 10:34:03: 4000000 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 10:34:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.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 10:34:06: #1 read tag files... INFO @ Tue, 16 Jun 2020 10:34:06: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 10:34:06: 9000000 INFO @ Tue, 16 Jun 2020 10:34:11: 5000000 INFO @ Tue, 16 Jun 2020 10:34:13: 10000000 INFO @ Tue, 16 Jun 2020 10:34:13: 1000000 INFO @ Tue, 16 Jun 2020 10:34:18: 6000000 INFO @ Tue, 16 Jun 2020 10:34:19: 11000000 INFO @ Tue, 16 Jun 2020 10:34:20: 2000000 INFO @ Tue, 16 Jun 2020 10:34:26: 12000000 INFO @ Tue, 16 Jun 2020 10:34:26: 7000000 INFO @ Tue, 16 Jun 2020 10:34:26: 3000000 INFO @ Tue, 16 Jun 2020 10:34:32: 13000000 INFO @ Tue, 16 Jun 2020 10:34:33: 8000000 INFO @ Tue, 16 Jun 2020 10:34:34: 4000000 INFO @ Tue, 16 Jun 2020 10:34:39: 14000000 INFO @ Tue, 16 Jun 2020 10:34:40: 9000000 INFO @ Tue, 16 Jun 2020 10:34:41: 5000000 INFO @ Tue, 16 Jun 2020 10:34:45: 15000000 INFO @ Tue, 16 Jun 2020 10:34:47: 10000000 INFO @ Tue, 16 Jun 2020 10:34:49: 6000000 INFO @ Tue, 16 Jun 2020 10:34:52: 16000000 INFO @ Tue, 16 Jun 2020 10:34:54: 11000000 INFO @ Tue, 16 Jun 2020 10:34:56: 7000000 INFO @ Tue, 16 Jun 2020 10:34:58: 17000000 INFO @ Tue, 16 Jun 2020 10:35:02: 12000000 INFO @ Tue, 16 Jun 2020 10:35:03: 8000000 INFO @ Tue, 16 Jun 2020 10:35:04: 18000000 INFO @ Tue, 16 Jun 2020 10:35:09: 13000000 INFO @ Tue, 16 Jun 2020 10:35:10: 9000000 INFO @ Tue, 16 Jun 2020 10:35:11: 19000000 INFO @ Tue, 16 Jun 2020 10:35:17: 14000000 INFO @ Tue, 16 Jun 2020 10:35:17: 20000000 INFO @ Tue, 16 Jun 2020 10:35:18: 10000000 INFO @ Tue, 16 Jun 2020 10:35:23: 21000000 INFO @ Tue, 16 Jun 2020 10:35:24: 15000000 INFO @ Tue, 16 Jun 2020 10:35:24: 11000000 INFO @ Tue, 16 Jun 2020 10:35:30: 22000000 INFO @ Tue, 16 Jun 2020 10:35:32: 16000000 INFO @ Tue, 16 Jun 2020 10:35:32: 12000000 INFO @ Tue, 16 Jun 2020 10:35:36: 23000000 INFO @ Tue, 16 Jun 2020 10:35:39: 17000000 INFO @ Tue, 16 Jun 2020 10:35:39: 13000000 INFO @ Tue, 16 Jun 2020 10:35:43: 24000000 INFO @ Tue, 16 Jun 2020 10:35:46: 18000000 INFO @ Tue, 16 Jun 2020 10:35:47: 14000000 INFO @ Tue, 16 Jun 2020 10:35:49: 25000000 INFO @ Tue, 16 Jun 2020 10:35:53: 19000000 INFO @ Tue, 16 Jun 2020 10:35:54: 15000000 INFO @ Tue, 16 Jun 2020 10:35:56: 26000000 INFO @ Tue, 16 Jun 2020 10:36:01: 20000000 INFO @ Tue, 16 Jun 2020 10:36:02: 16000000 INFO @ Tue, 16 Jun 2020 10:36:02: 27000000 INFO @ Tue, 16 Jun 2020 10:36:08: 21000000 INFO @ Tue, 16 Jun 2020 10:36:09: 28000000 INFO @ Tue, 16 Jun 2020 10:36:09: 17000000 INFO @ Tue, 16 Jun 2020 10:36:15: 29000000 INFO @ Tue, 16 Jun 2020 10:36:15: 22000000 INFO @ Tue, 16 Jun 2020 10:36:16: 18000000 INFO @ Tue, 16 Jun 2020 10:36:22: 30000000 INFO @ Tue, 16 Jun 2020 10:36:23: 23000000 INFO @ Tue, 16 Jun 2020 10:36:24: 19000000 INFO @ Tue, 16 Jun 2020 10:36:28: 31000000 INFO @ Tue, 16 Jun 2020 10:36:30: 24000000 INFO @ Tue, 16 Jun 2020 10:36:31: 20000000 INFO @ Tue, 16 Jun 2020 10:36:34: 32000000 INFO @ Tue, 16 Jun 2020 10:36:38: 25000000 INFO @ Tue, 16 Jun 2020 10:36:38: 21000000 INFO @ Tue, 16 Jun 2020 10:36:40: 33000000 INFO @ Tue, 16 Jun 2020 10:36:45: 22000000 INFO @ Tue, 16 Jun 2020 10:36:46: 26000000 INFO @ Tue, 16 Jun 2020 10:36:47: 34000000 INFO @ Tue, 16 Jun 2020 10:36:52: 23000000 INFO @ Tue, 16 Jun 2020 10:36:53: 35000000 INFO @ Tue, 16 Jun 2020 10:36:53: 27000000 INFO @ Tue, 16 Jun 2020 10:36:59: 36000000 INFO @ Tue, 16 Jun 2020 10:37:00: 24000000 INFO @ Tue, 16 Jun 2020 10:37:01: 28000000 INFO @ Tue, 16 Jun 2020 10:37:05: 37000000 INFO @ Tue, 16 Jun 2020 10:37:07: 25000000 INFO @ Tue, 16 Jun 2020 10:37:08: 29000000 INFO @ Tue, 16 Jun 2020 10:37:12: 38000000 INFO @ Tue, 16 Jun 2020 10:37:15: 26000000 INFO @ Tue, 16 Jun 2020 10:37:16: 30000000 INFO @ Tue, 16 Jun 2020 10:37:18: 39000000 INFO @ Tue, 16 Jun 2020 10:37:22: 27000000 INFO @ Tue, 16 Jun 2020 10:37:23: 31000000 INFO @ Tue, 16 Jun 2020 10:37:24: 40000000 INFO @ Tue, 16 Jun 2020 10:37:29: 28000000 INFO @ Tue, 16 Jun 2020 10:37:30: 32000000 INFO @ Tue, 16 Jun 2020 10:37:30: 41000000 INFO @ Tue, 16 Jun 2020 10:37:37: 42000000 INFO @ Tue, 16 Jun 2020 10:37:37: 29000000 INFO @ Tue, 16 Jun 2020 10:37:37: 33000000 INFO @ Tue, 16 Jun 2020 10:37:43: 43000000 INFO @ Tue, 16 Jun 2020 10:37:44: 30000000 INFO @ Tue, 16 Jun 2020 10:37:45: 34000000 INFO @ Tue, 16 Jun 2020 10:37:49: 44000000 INFO @ Tue, 16 Jun 2020 10:37:51: 31000000 INFO @ Tue, 16 Jun 2020 10:37:52: 35000000 INFO @ Tue, 16 Jun 2020 10:37:55: 45000000 INFO @ Tue, 16 Jun 2020 10:37:58: 32000000 INFO @ Tue, 16 Jun 2020 10:38:00: 36000000 INFO @ Tue, 16 Jun 2020 10:38:02: 46000000 INFO @ Tue, 16 Jun 2020 10:38:05: 33000000 INFO @ Tue, 16 Jun 2020 10:38:07: 37000000 INFO @ Tue, 16 Jun 2020 10:38:08: 47000000 INFO @ Tue, 16 Jun 2020 10:38:13: 34000000 INFO @ Tue, 16 Jun 2020 10:38:14: 48000000 INFO @ Tue, 16 Jun 2020 10:38:14: 38000000 INFO @ Tue, 16 Jun 2020 10:38:20: 35000000 INFO @ Tue, 16 Jun 2020 10:38:20: 49000000 INFO @ Tue, 16 Jun 2020 10:38:22: 39000000 INFO @ Tue, 16 Jun 2020 10:38:27: 36000000 INFO @ Tue, 16 Jun 2020 10:38:27: 50000000 INFO @ Tue, 16 Jun 2020 10:38:29: 40000000 INFO @ Tue, 16 Jun 2020 10:38:33: 51000000 INFO @ Tue, 16 Jun 2020 10:38:34: 37000000 INFO @ Tue, 16 Jun 2020 10:38:36: 41000000 INFO @ Tue, 16 Jun 2020 10:38:39: 52000000 INFO @ Tue, 16 Jun 2020 10:38:41: 38000000 INFO @ Tue, 16 Jun 2020 10:38:43: 42000000 INFO @ Tue, 16 Jun 2020 10:38:45: 53000000 INFO @ Tue, 16 Jun 2020 10:38:48: 39000000 INFO @ Tue, 16 Jun 2020 10:38:50: 43000000 INFO @ Tue, 16 Jun 2020 10:38:52: 54000000 INFO @ Tue, 16 Jun 2020 10:38:55: 40000000 INFO @ Tue, 16 Jun 2020 10:38:57: 44000000 INFO @ Tue, 16 Jun 2020 10:38:58: 55000000 INFO @ Tue, 16 Jun 2020 10:39:02: 41000000 INFO @ Tue, 16 Jun 2020 10:39:04: 56000000 INFO @ Tue, 16 Jun 2020 10:39:05: 45000000 INFO @ Tue, 16 Jun 2020 10:39:09: 42000000 INFO @ Tue, 16 Jun 2020 10:39:10: 57000000 INFO @ Tue, 16 Jun 2020 10:39:12: 46000000 INFO @ Tue, 16 Jun 2020 10:39:16: 43000000 INFO @ Tue, 16 Jun 2020 10:39:17: 58000000 INFO @ Tue, 16 Jun 2020 10:39:19: 47000000 INFO @ Tue, 16 Jun 2020 10:39:23: 44000000 INFO @ Tue, 16 Jun 2020 10:39:24: 59000000 INFO @ Tue, 16 Jun 2020 10:39:27: 48000000 INFO @ Tue, 16 Jun 2020 10:39:30: 45000000 INFO @ Tue, 16 Jun 2020 10:39:30: 60000000 INFO @ Tue, 16 Jun 2020 10:39:34: 49000000 INFO @ Tue, 16 Jun 2020 10:39:37: 46000000 INFO @ Tue, 16 Jun 2020 10:39:38: 61000000 INFO @ Tue, 16 Jun 2020 10:39:41: 50000000 INFO @ Tue, 16 Jun 2020 10:39:44: 47000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 10:39:45: 62000000 INFO @ Tue, 16 Jun 2020 10:39:49: 51000000 INFO @ Tue, 16 Jun 2020 10:39:51: 48000000 INFO @ Tue, 16 Jun 2020 10:39:52: 63000000 INFO @ Tue, 16 Jun 2020 10:39:56: 52000000 INFO @ Tue, 16 Jun 2020 10:39:58: 49000000 INFO @ Tue, 16 Jun 2020 10:39:59: 64000000 INFO @ Tue, 16 Jun 2020 10:40:04: 53000000 INFO @ Tue, 16 Jun 2020 10:40:06: 50000000 INFO @ Tue, 16 Jun 2020 10:40:06: 65000000 INFO @ Tue, 16 Jun 2020 10:40:11: 54000000 INFO @ Tue, 16 Jun 2020 10:40:13: 51000000 INFO @ Tue, 16 Jun 2020 10:40:14: 66000000 INFO @ Tue, 16 Jun 2020 10:40:18: 55000000 INFO @ Tue, 16 Jun 2020 10:40:19: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 10:40:19: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 10:40:19: #1 total tags in treatment: 32900306 INFO @ Tue, 16 Jun 2020 10:40:19: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:40:19: #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 10:40:20: #1 tags after filtering in treatment: 28804865 INFO @ Tue, 16 Jun 2020 10:40:20: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 16 Jun 2020 10:40:20: #1 finished! INFO @ Tue, 16 Jun 2020 10:40:20: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:40:20: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:40:20: 52000000 INFO @ Tue, 16 Jun 2020 10:40:22: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:40:22: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:40:22: start model_add_line... INFO @ Tue, 16 Jun 2020 10:40:22: start X-correlation... INFO @ Tue, 16 Jun 2020 10:40:22: end of X-cor INFO @ Tue, 16 Jun 2020 10:40:22: #2 finished! INFO @ Tue, 16 Jun 2020 10:40:22: #2 predicted fragment length is 106 bps INFO @ Tue, 16 Jun 2020 10:40:22: #2 alternative fragment length(s) may be 2,83,106,133,172,183,202 bps INFO @ Tue, 16 Jun 2020 10:40:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05_model.r WARNING @ Tue, 16 Jun 2020 10:40:22: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 10:40:22: #2 You may need to consider one of the other alternative d(s): 2,83,106,133,172,183,202 WARNING @ Tue, 16 Jun 2020 10:40:22: #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 10:40:22: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:40:22: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:40:26: 56000000 INFO @ Tue, 16 Jun 2020 10:40:28: 53000000 INFO @ Tue, 16 Jun 2020 10:40:34: 57000000 INFO @ Tue, 16 Jun 2020 10:40:35: 54000000 INFO @ Tue, 16 Jun 2020 10:40:42: 58000000 INFO @ Tue, 16 Jun 2020 10:40:42: 55000000 INFO @ Tue, 16 Jun 2020 10:40:49: 56000000 INFO @ Tue, 16 Jun 2020 10:40:50: 59000000 INFO @ Tue, 16 Jun 2020 10:40:57: 57000000 INFO @ Tue, 16 Jun 2020 10:40:58: 60000000 INFO @ Tue, 16 Jun 2020 10:41:05: 58000000 INFO @ Tue, 16 Jun 2020 10:41:06: 61000000 INFO @ Tue, 16 Jun 2020 10:41:13: 59000000 INFO @ Tue, 16 Jun 2020 10:41:14: 62000000 INFO @ Tue, 16 Jun 2020 10:41:15: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:41:21: 60000000 INFO @ Tue, 16 Jun 2020 10:41:22: 63000000 BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 10:41:29: 61000000 INFO @ Tue, 16 Jun 2020 10:41:29: 64000000 INFO @ Tue, 16 Jun 2020 10:41:37: 65000000 INFO @ Tue, 16 Jun 2020 10:41:37: 62000000 INFO @ Tue, 16 Jun 2020 10:41:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05_peaks.xls INFO @ Tue, 16 Jun 2020 10:41:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:41:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.05_summits.bed INFO @ Tue, 16 Jun 2020 10:41:39: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (596 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:41:44: 66000000 INFO @ Tue, 16 Jun 2020 10:41:45: 63000000 INFO @ Tue, 16 Jun 2020 10:41:48: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 10:41:48: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 10:41:48: #1 total tags in treatment: 32900306 INFO @ Tue, 16 Jun 2020 10:41:48: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:41:48: #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 10:41:49: #1 tags after filtering in treatment: 28804865 INFO @ Tue, 16 Jun 2020 10:41:49: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 16 Jun 2020 10:41:49: #1 finished! INFO @ Tue, 16 Jun 2020 10:41:49: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:41:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:41:51: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:41:51: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:41:51: start model_add_line... INFO @ Tue, 16 Jun 2020 10:41:51: start X-correlation... INFO @ Tue, 16 Jun 2020 10:41:51: end of X-cor INFO @ Tue, 16 Jun 2020 10:41:51: #2 finished! INFO @ Tue, 16 Jun 2020 10:41:51: #2 predicted fragment length is 106 bps INFO @ Tue, 16 Jun 2020 10:41:51: #2 alternative fragment length(s) may be 2,83,106,133,172,183,202 bps INFO @ Tue, 16 Jun 2020 10:41:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10_model.r WARNING @ Tue, 16 Jun 2020 10:41:51: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 10:41:51: #2 You may need to consider one of the other alternative d(s): 2,83,106,133,172,183,202 WARNING @ Tue, 16 Jun 2020 10:41:51: #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 10:41:51: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:41:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:41:52: 64000000 INFO @ Tue, 16 Jun 2020 10:42:00: 65000000 INFO @ Tue, 16 Jun 2020 10:42:06: 66000000 INFO @ Tue, 16 Jun 2020 10:42:10: #1 tag size is determined as 101 bps INFO @ Tue, 16 Jun 2020 10:42:10: #1 tag size = 101 INFO @ Tue, 16 Jun 2020 10:42:10: #1 total tags in treatment: 32900306 INFO @ Tue, 16 Jun 2020 10:42:10: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 10:42:10: #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 10:42:11: #1 tags after filtering in treatment: 28804865 INFO @ Tue, 16 Jun 2020 10:42:11: #1 Redundant rate of treatment: 0.12 INFO @ Tue, 16 Jun 2020 10:42:11: #1 finished! INFO @ Tue, 16 Jun 2020 10:42:11: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 10:42:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 10:42:13: #2 number of paired peaks: 123 WARNING @ Tue, 16 Jun 2020 10:42:13: Fewer paired peaks (123) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 123 pairs to build model! INFO @ Tue, 16 Jun 2020 10:42:13: start model_add_line... INFO @ Tue, 16 Jun 2020 10:42:13: start X-correlation... INFO @ Tue, 16 Jun 2020 10:42:13: end of X-cor INFO @ Tue, 16 Jun 2020 10:42:13: #2 finished! INFO @ Tue, 16 Jun 2020 10:42:13: #2 predicted fragment length is 106 bps INFO @ Tue, 16 Jun 2020 10:42:13: #2 alternative fragment length(s) may be 2,83,106,133,172,183,202 bps INFO @ Tue, 16 Jun 2020 10:42:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20_model.r WARNING @ Tue, 16 Jun 2020 10:42:13: #2 Since the d (106) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 16 Jun 2020 10:42:13: #2 You may need to consider one of the other alternative d(s): 2,83,106,133,172,183,202 WARNING @ Tue, 16 Jun 2020 10:42:13: #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 10:42:13: #3 Call peaks... INFO @ Tue, 16 Jun 2020 10:42:13: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 16 Jun 2020 10:42:44: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:43:06: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 10:43:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10_peaks.xls INFO @ Tue, 16 Jun 2020 10:43:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:43:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.10_summits.bed INFO @ Tue, 16 Jun 2020 10:43:07: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (423 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 10:43:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20_peaks.xls INFO @ Tue, 16 Jun 2020 10:43:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 10:43:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX2985937/SRX2985937.20_summits.bed INFO @ Tue, 16 Jun 2020 10:43:30: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (244 records, 4 fields): 1 millis CompletedMACS2peakCalling