Job ID = 6530846 SRX = SRX4453993 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-06-30T00:42:31 prefetch.2.10.7: 1) Downloading 'SRR7588749'... 2020-06-30T00:42:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-30T01:39:28 prefetch.2.10.7: HTTPS download succeed 2020-06-30T01:39:28 prefetch.2.10.7: 1) 'SRR7588749' was downloaded successfully 2020-06-30T01:39:28 prefetch.2.10.7: 'SRR7588749' has 0 unresolved dependencies Rejected 234257220 READS because READLEN < 1 Read 234257220 spots for SRR7588749/SRR7588749.sra Written 234257220 spots for SRR7588749/SRR7588749.sra fastq に変換しました。 bowtie でマッピング中... Your job 6531087 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Error, fewer reads in file specified with -2 than in file specified with -1 terminate called after throwing an instance of 'int' (ERR): bowtie2-align died with signal 6 (ABRT) (core dumped) 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 60 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] 2 unmatched pairs [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] 1 unmatched pairs [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] 1 unmatched pairs [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] 2 unmatched pairs [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] 1054 unmatched pairs [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1060 / 3434041 = 0.0003 in library ' ' awk: cmd. line:1: (FILENAME=- FNR=1) fatal: division by zero attempted 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, 30 Jun 2020 12:01:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.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 @ Tue, 30 Jun 2020 12:01:43: #1 read tag files... INFO @ Tue, 30 Jun 2020 12:01:43: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 12:01:51: 1000000 INFO @ Tue, 30 Jun 2020 12:02:00: 2000000 INFO @ Tue, 30 Jun 2020 12:02:08: 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, 30 Jun 2020 12:02:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.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 @ Tue, 30 Jun 2020 12:02:11: #1 read tag files... INFO @ Tue, 30 Jun 2020 12:02:11: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 12:02:18: 4000000 INFO @ Tue, 30 Jun 2020 12:02:20: 1000000 INFO @ Tue, 30 Jun 2020 12:02:27: 5000000 INFO @ Tue, 30 Jun 2020 12:02:29: 2000000 INFO @ Tue, 30 Jun 2020 12:02:37: 6000000 INFO @ Tue, 30 Jun 2020 12:02:39: 3000000 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, 30 Jun 2020 12:02:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.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 @ Tue, 30 Jun 2020 12:02:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 12:02:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 12:02:47: 7000000 INFO @ Tue, 30 Jun 2020 12:02:49: 4000000 INFO @ Tue, 30 Jun 2020 12:02:50: 1000000 INFO @ Tue, 30 Jun 2020 12:02:57: 8000000 INFO @ Tue, 30 Jun 2020 12:02:59: 5000000 INFO @ Tue, 30 Jun 2020 12:03:00: 2000000 INFO @ Tue, 30 Jun 2020 12:03:07: 9000000 INFO @ Tue, 30 Jun 2020 12:03:09: 6000000 INFO @ Tue, 30 Jun 2020 12:03:10: 3000000 INFO @ Tue, 30 Jun 2020 12:03:16: 10000000 INFO @ Tue, 30 Jun 2020 12:03:19: 7000000 INFO @ Tue, 30 Jun 2020 12:03:20: 4000000 INFO @ Tue, 30 Jun 2020 12:03:26: 11000000 INFO @ Tue, 30 Jun 2020 12:03:29: 8000000 INFO @ Tue, 30 Jun 2020 12:03:30: 5000000 INFO @ Tue, 30 Jun 2020 12:03:36: 12000000 INFO @ Tue, 30 Jun 2020 12:03:39: 9000000 INFO @ Tue, 30 Jun 2020 12:03:40: 6000000 INFO @ Tue, 30 Jun 2020 12:03:46: 13000000 INFO @ Tue, 30 Jun 2020 12:03:49: 10000000 INFO @ Tue, 30 Jun 2020 12:03:50: 7000000 INFO @ Tue, 30 Jun 2020 12:03:55: 14000000 INFO @ Tue, 30 Jun 2020 12:03:59: 11000000 INFO @ Tue, 30 Jun 2020 12:04:00: 8000000 INFO @ Tue, 30 Jun 2020 12:04:05: 15000000 INFO @ Tue, 30 Jun 2020 12:04:08: 12000000 INFO @ Tue, 30 Jun 2020 12:04:10: 9000000 INFO @ Tue, 30 Jun 2020 12:04:14: 16000000 INFO @ Tue, 30 Jun 2020 12:04:18: 13000000 INFO @ Tue, 30 Jun 2020 12:04:20: 10000000 INFO @ Tue, 30 Jun 2020 12:04:24: 17000000 INFO @ Tue, 30 Jun 2020 12:04:28: 14000000 INFO @ Tue, 30 Jun 2020 12:04:30: 11000000 INFO @ Tue, 30 Jun 2020 12:04:33: 18000000 INFO @ Tue, 30 Jun 2020 12:04:38: 15000000 INFO @ Tue, 30 Jun 2020 12:04:40: 12000000 INFO @ Tue, 30 Jun 2020 12:04:43: 19000000 INFO @ Tue, 30 Jun 2020 12:04:47: 16000000 INFO @ Tue, 30 Jun 2020 12:04:49: 13000000 INFO @ Tue, 30 Jun 2020 12:04:52: 20000000 INFO @ Tue, 30 Jun 2020 12:04:57: 17000000 INFO @ Tue, 30 Jun 2020 12:04:59: 14000000 INFO @ Tue, 30 Jun 2020 12:05:02: 21000000 INFO @ Tue, 30 Jun 2020 12:05:07: 18000000 INFO @ Tue, 30 Jun 2020 12:05:09: 15000000 INFO @ Tue, 30 Jun 2020 12:05:10: 22000000 INFO @ Tue, 30 Jun 2020 12:05:16: 19000000 INFO @ Tue, 30 Jun 2020 12:05:17: 16000000 INFO @ Tue, 30 Jun 2020 12:05:19: 23000000 INFO @ Tue, 30 Jun 2020 12:05:26: 20000000 INFO @ Tue, 30 Jun 2020 12:05:27: 17000000 INFO @ Tue, 30 Jun 2020 12:05:28: 24000000 INFO @ Tue, 30 Jun 2020 12:05:35: 21000000 INFO @ Tue, 30 Jun 2020 12:05:37: 18000000 INFO @ Tue, 30 Jun 2020 12:05:38: 25000000 INFO @ Tue, 30 Jun 2020 12:05:45: 22000000 INFO @ Tue, 30 Jun 2020 12:05:47: 26000000 INFO @ Tue, 30 Jun 2020 12:05:47: 19000000 INFO @ Tue, 30 Jun 2020 12:05:54: 23000000 INFO @ Tue, 30 Jun 2020 12:05:57: 27000000 INFO @ Tue, 30 Jun 2020 12:05:57: 20000000 INFO @ Tue, 30 Jun 2020 12:06:03: 24000000 INFO @ Tue, 30 Jun 2020 12:06:06: 28000000 INFO @ Tue, 30 Jun 2020 12:06:07: 21000000 INFO @ Tue, 30 Jun 2020 12:06:13: 25000000 INFO @ Tue, 30 Jun 2020 12:06:15: 29000000 INFO @ Tue, 30 Jun 2020 12:06:17: 22000000 INFO @ Tue, 30 Jun 2020 12:06:22: 26000000 INFO @ Tue, 30 Jun 2020 12:06:25: 30000000 INFO @ Tue, 30 Jun 2020 12:06:26: 23000000 INFO @ Tue, 30 Jun 2020 12:06:31: 27000000 INFO @ Tue, 30 Jun 2020 12:06:34: 31000000 INFO @ Tue, 30 Jun 2020 12:06:36: 24000000 INFO @ Tue, 30 Jun 2020 12:06:41: 28000000 INFO @ Tue, 30 Jun 2020 12:06:43: 32000000 INFO @ Tue, 30 Jun 2020 12:06:45: 25000000 INFO @ Tue, 30 Jun 2020 12:06:50: 29000000 INFO @ Tue, 30 Jun 2020 12:06:53: 33000000 INFO @ Tue, 30 Jun 2020 12:06:55: 26000000 INFO @ Tue, 30 Jun 2020 12:07:00: 30000000 INFO @ Tue, 30 Jun 2020 12:07:02: 34000000 INFO @ Tue, 30 Jun 2020 12:07:04: 27000000 INFO @ Tue, 30 Jun 2020 12:07:09: 31000000 INFO @ Tue, 30 Jun 2020 12:07:12: 35000000 INFO @ Tue, 30 Jun 2020 12:07:14: 28000000 INFO @ Tue, 30 Jun 2020 12:07:18: 32000000 INFO @ Tue, 30 Jun 2020 12:07:21: 36000000 INFO @ Tue, 30 Jun 2020 12:07:23: 29000000 INFO @ Tue, 30 Jun 2020 12:07:27: 33000000 INFO @ Tue, 30 Jun 2020 12:07:30: 37000000 INFO @ Tue, 30 Jun 2020 12:07:33: 30000000 INFO @ Tue, 30 Jun 2020 12:07:37: 34000000 INFO @ Tue, 30 Jun 2020 12:07:40: 38000000 INFO @ Tue, 30 Jun 2020 12:07:42: 31000000 INFO @ Tue, 30 Jun 2020 12:07:46: 35000000 INFO @ Tue, 30 Jun 2020 12:07:49: 39000000 INFO @ Tue, 30 Jun 2020 12:07:52: 32000000 INFO @ Tue, 30 Jun 2020 12:07:55: 36000000 INFO @ Tue, 30 Jun 2020 12:07:58: 40000000 INFO @ Tue, 30 Jun 2020 12:08:01: 33000000 INFO @ Tue, 30 Jun 2020 12:08:04: 37000000 INFO @ Tue, 30 Jun 2020 12:08:08: 41000000 INFO @ Tue, 30 Jun 2020 12:08:10: 34000000 INFO @ Tue, 30 Jun 2020 12:08:14: 38000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 12:08:17: 42000000 INFO @ Tue, 30 Jun 2020 12:08:20: 35000000 INFO @ Tue, 30 Jun 2020 12:08:23: 39000000 INFO @ Tue, 30 Jun 2020 12:08:26: 43000000 INFO @ Tue, 30 Jun 2020 12:08:29: 36000000 INFO @ Tue, 30 Jun 2020 12:08:32: 40000000 INFO @ Tue, 30 Jun 2020 12:08:35: 44000000 INFO @ Tue, 30 Jun 2020 12:08:38: 37000000 INFO @ Tue, 30 Jun 2020 12:08:41: 41000000 INFO @ Tue, 30 Jun 2020 12:08:44: 45000000 INFO @ Tue, 30 Jun 2020 12:08:48: 38000000 INFO @ Tue, 30 Jun 2020 12:08:50: 42000000 INFO @ Tue, 30 Jun 2020 12:08:53: 46000000 INFO @ Tue, 30 Jun 2020 12:08:57: 39000000 INFO @ Tue, 30 Jun 2020 12:09:00: 43000000 INFO @ Tue, 30 Jun 2020 12:09:03: 47000000 INFO @ Tue, 30 Jun 2020 12:09:06: 40000000 INFO @ Tue, 30 Jun 2020 12:09:09: 44000000 INFO @ Tue, 30 Jun 2020 12:09:12: 48000000 INFO @ Tue, 30 Jun 2020 12:09:16: 41000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 12:09:18: 45000000 INFO @ Tue, 30 Jun 2020 12:09:21: 49000000 INFO @ Tue, 30 Jun 2020 12:09:25: 42000000 INFO @ Tue, 30 Jun 2020 12:09:27: 46000000 INFO @ Tue, 30 Jun 2020 12:09:30: 50000000 INFO @ Tue, 30 Jun 2020 12:09:34: 43000000 INFO @ Tue, 30 Jun 2020 12:09:36: 47000000 INFO @ Tue, 30 Jun 2020 12:09:39: 51000000 INFO @ Tue, 30 Jun 2020 12:09:44: 44000000 INFO @ Tue, 30 Jun 2020 12:09:46: 48000000 INFO @ Tue, 30 Jun 2020 12:09:48: 52000000 INFO @ Tue, 30 Jun 2020 12:09:53: 45000000 INFO @ Tue, 30 Jun 2020 12:09:55: 49000000 INFO @ Tue, 30 Jun 2020 12:09:57: 53000000 INFO @ Tue, 30 Jun 2020 12:10:03: 46000000 INFO @ Tue, 30 Jun 2020 12:10:04: 50000000 INFO @ Tue, 30 Jun 2020 12:10:06: 54000000 INFO @ Tue, 30 Jun 2020 12:10:12: 47000000 INFO @ Tue, 30 Jun 2020 12:10:13: 51000000 INFO @ Tue, 30 Jun 2020 12:10:16: 55000000 INFO @ Tue, 30 Jun 2020 12:10:21: 48000000 INFO @ Tue, 30 Jun 2020 12:10:22: 52000000 INFO @ Tue, 30 Jun 2020 12:10:25: 56000000 INFO @ Tue, 30 Jun 2020 12:10:31: 49000000 INFO @ Tue, 30 Jun 2020 12:10:31: 53000000 INFO @ Tue, 30 Jun 2020 12:10:35: 57000000 INFO @ Tue, 30 Jun 2020 12:10:40: 50000000 INFO @ Tue, 30 Jun 2020 12:10:40: 54000000 INFO @ Tue, 30 Jun 2020 12:10:44: 58000000 INFO @ Tue, 30 Jun 2020 12:10:49: 51000000 INFO @ Tue, 30 Jun 2020 12:10:50: 55000000 INFO @ Tue, 30 Jun 2020 12:10:53: 59000000 INFO @ Tue, 30 Jun 2020 12:10:58: 52000000 INFO @ Tue, 30 Jun 2020 12:10:59: 56000000 INFO @ Tue, 30 Jun 2020 12:11:03: 60000000 INFO @ Tue, 30 Jun 2020 12:11:07: 53000000 INFO @ Tue, 30 Jun 2020 12:11:09: 57000000 INFO @ Tue, 30 Jun 2020 12:11:12: 61000000 INFO @ Tue, 30 Jun 2020 12:11:17: 54000000 INFO @ Tue, 30 Jun 2020 12:11:18: 58000000 INFO @ Tue, 30 Jun 2020 12:11:21: 62000000 INFO @ Tue, 30 Jun 2020 12:11:26: 55000000 INFO @ Tue, 30 Jun 2020 12:11:27: 59000000 INFO @ Tue, 30 Jun 2020 12:11:31: 63000000 INFO @ Tue, 30 Jun 2020 12:11:36: 56000000 INFO @ Tue, 30 Jun 2020 12:11:37: 60000000 INFO @ Tue, 30 Jun 2020 12:11:40: 64000000 INFO @ Tue, 30 Jun 2020 12:11:46: 57000000 INFO @ Tue, 30 Jun 2020 12:11:46: 61000000 INFO @ Tue, 30 Jun 2020 12:11:50: 65000000 INFO @ Tue, 30 Jun 2020 12:11:55: 58000000 INFO @ Tue, 30 Jun 2020 12:11:55: 62000000 INFO @ Tue, 30 Jun 2020 12:11:59: 66000000 INFO @ Tue, 30 Jun 2020 12:12:05: 63000000 INFO @ Tue, 30 Jun 2020 12:12:05: 59000000 INFO @ Tue, 30 Jun 2020 12:12:08: 67000000 INFO @ Tue, 30 Jun 2020 12:12:14: 64000000 INFO @ Tue, 30 Jun 2020 12:12:14: 60000000 INFO @ Tue, 30 Jun 2020 12:12:18: 68000000 INFO @ Tue, 30 Jun 2020 12:12:24: 61000000 INFO @ Tue, 30 Jun 2020 12:12:24: 65000000 INFO @ Tue, 30 Jun 2020 12:12:27: 69000000 INFO @ Tue, 30 Jun 2020 12:12:33: 66000000 INFO @ Tue, 30 Jun 2020 12:12:33: 62000000 INFO @ Tue, 30 Jun 2020 12:12:36: 70000000 INFO @ Tue, 30 Jun 2020 12:12:42: 67000000 INFO @ Tue, 30 Jun 2020 12:12:43: 63000000 INFO @ Tue, 30 Jun 2020 12:12:45: 71000000 INFO @ Tue, 30 Jun 2020 12:12:51: 68000000 INFO @ Tue, 30 Jun 2020 12:12:52: 64000000 INFO @ Tue, 30 Jun 2020 12:12:54: 72000000 INFO @ Tue, 30 Jun 2020 12:12:56: #1 tag size is determined as 146 bps INFO @ Tue, 30 Jun 2020 12:12:56: #1 tag size = 146 INFO @ Tue, 30 Jun 2020 12:12:56: #1 total tags in treatment: 14013 INFO @ Tue, 30 Jun 2020 12:12:56: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 12:12:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 12:12:56: #1 tags after filtering in treatment: 11541 INFO @ Tue, 30 Jun 2020 12:12:56: #1 Redundant rate of treatment: 0.18 INFO @ Tue, 30 Jun 2020 12:12:56: #1 finished! INFO @ Tue, 30 Jun 2020 12:12:56: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 12:12:56: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 12:12:56: #2 number of paired peaks: 224 WARNING @ Tue, 30 Jun 2020 12:12:56: Fewer paired peaks (224) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 224 pairs to build model! INFO @ Tue, 30 Jun 2020 12:12:56: start model_add_line... INFO @ Tue, 30 Jun 2020 12:12:56: start X-correlation... INFO @ Tue, 30 Jun 2020 12:12:56: end of X-cor INFO @ Tue, 30 Jun 2020 12:12:56: #2 finished! INFO @ Tue, 30 Jun 2020 12:12:56: #2 predicted fragment length is 469 bps INFO @ Tue, 30 Jun 2020 12:12:56: #2 alternative fragment length(s) may be 15,47,62,114,132,139,145,287,311,433,469 bps INFO @ Tue, 30 Jun 2020 12:12:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05_model.r INFO @ Tue, 30 Jun 2020 12:12:56: #3 Call peaks... INFO @ Tue, 30 Jun 2020 12:12:56: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 12:12:56: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 12:12:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05_peaks.xls INFO @ Tue, 30 Jun 2020 12:12:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 12:12:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.05_summits.bed INFO @ Tue, 30 Jun 2020 12:12:56: Done! pass1 - making usageList (2 chroms): 1 millis pass2 - checking and writing primary data (48 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 12:13:01: 69000000 INFO @ Tue, 30 Jun 2020 12:13:02: 65000000 INFO @ Tue, 30 Jun 2020 12:13:10: 70000000 INFO @ Tue, 30 Jun 2020 12:13:11: 66000000 INFO @ Tue, 30 Jun 2020 12:13:19: 71000000 INFO @ Tue, 30 Jun 2020 12:13:20: 67000000 INFO @ Tue, 30 Jun 2020 12:13:28: 72000000 INFO @ Tue, 30 Jun 2020 12:13:29: #1 tag size is determined as 146 bps INFO @ Tue, 30 Jun 2020 12:13:29: #1 tag size = 146 INFO @ Tue, 30 Jun 2020 12:13:29: #1 total tags in treatment: 14013 INFO @ Tue, 30 Jun 2020 12:13:29: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 12:13:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 12:13:29: #1 tags after filtering in treatment: 11541 INFO @ Tue, 30 Jun 2020 12:13:29: #1 Redundant rate of treatment: 0.18 INFO @ Tue, 30 Jun 2020 12:13:29: #1 finished! INFO @ Tue, 30 Jun 2020 12:13:29: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 12:13:29: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 12:13:29: #2 number of paired peaks: 224 WARNING @ Tue, 30 Jun 2020 12:13:29: Fewer paired peaks (224) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 224 pairs to build model! INFO @ Tue, 30 Jun 2020 12:13:29: start model_add_line... INFO @ Tue, 30 Jun 2020 12:13:29: start X-correlation... INFO @ Tue, 30 Jun 2020 12:13:29: end of X-cor INFO @ Tue, 30 Jun 2020 12:13:29: #2 finished! INFO @ Tue, 30 Jun 2020 12:13:29: #2 predicted fragment length is 469 bps INFO @ Tue, 30 Jun 2020 12:13:29: #2 alternative fragment length(s) may be 15,47,62,114,132,139,145,287,311,433,469 bps INFO @ Tue, 30 Jun 2020 12:13:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10_model.r INFO @ Tue, 30 Jun 2020 12:13:29: #3 Call peaks... INFO @ Tue, 30 Jun 2020 12:13:29: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 12:13:29: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 12:13:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10_peaks.xls INFO @ Tue, 30 Jun 2020 12:13:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 12:13:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.10_summits.bed INFO @ Tue, 30 Jun 2020 12:13:29: Done! INFO @ Tue, 30 Jun 2020 12:13:30: 68000000 pass1 - making usageList (2 chroms): 1 millis pass2 - checking and writing primary data (22 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 12:13:38: 69000000 INFO @ Tue, 30 Jun 2020 12:13:47: 70000000 INFO @ Tue, 30 Jun 2020 12:13:55: 71000000 INFO @ Tue, 30 Jun 2020 12:14:04: 72000000 INFO @ Tue, 30 Jun 2020 12:14:05: #1 tag size is determined as 146 bps INFO @ Tue, 30 Jun 2020 12:14:05: #1 tag size = 146 INFO @ Tue, 30 Jun 2020 12:14:05: #1 total tags in treatment: 14013 INFO @ Tue, 30 Jun 2020 12:14:05: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 12:14:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 12:14:05: #1 tags after filtering in treatment: 11541 INFO @ Tue, 30 Jun 2020 12:14:05: #1 Redundant rate of treatment: 0.18 INFO @ Tue, 30 Jun 2020 12:14:05: #1 finished! INFO @ Tue, 30 Jun 2020 12:14:05: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 12:14:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 12:14:05: #2 number of paired peaks: 224 WARNING @ Tue, 30 Jun 2020 12:14:05: Fewer paired peaks (224) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 224 pairs to build model! INFO @ Tue, 30 Jun 2020 12:14:05: start model_add_line... INFO @ Tue, 30 Jun 2020 12:14:05: start X-correlation... INFO @ Tue, 30 Jun 2020 12:14:05: end of X-cor INFO @ Tue, 30 Jun 2020 12:14:05: #2 finished! INFO @ Tue, 30 Jun 2020 12:14:05: #2 predicted fragment length is 469 bps INFO @ Tue, 30 Jun 2020 12:14:05: #2 alternative fragment length(s) may be 15,47,62,114,132,139,145,287,311,433,469 bps INFO @ Tue, 30 Jun 2020 12:14:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20_model.r INFO @ Tue, 30 Jun 2020 12:14:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 12:14:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 12:14:05: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 12:14:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20_peaks.xls INFO @ Tue, 30 Jun 2020 12:14:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 12:14:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX4453993/SRX4453993.20_summits.bed INFO @ Tue, 30 Jun 2020 12:14:05: Done! pass1 - making usageList (1 chroms): 0 millis pass2 - checking and writing primary data (7 records, 4 fields): 1 millis CompletedMACS2peakCalling