Job ID = 6452281 SRX = ERX3548052 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:03:11 prefetch.2.10.7: 1) Downloading 'ERR3528411'... 2020-06-21T08:03:11 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:04:47 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:04:47 prefetch.2.10.7: 'ERR3528411' is valid 2020-06-21T08:04:47 prefetch.2.10.7: 1) 'ERR3528411' was downloaded successfully Read 7275357 spots for ERR3528411/ERR3528411.sra Written 7275357 spots for ERR3528411/ERR3528411.sra 2020-06-21T08:05:23 prefetch.2.10.7: 1) Downloading 'ERR3528412'... 2020-06-21T08:05:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:07:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:07:06 prefetch.2.10.7: 'ERR3528412' is valid 2020-06-21T08:07:06 prefetch.2.10.7: 1) 'ERR3528412' was downloaded successfully Read 7159692 spots for ERR3528412/ERR3528412.sra Written 7159692 spots for ERR3528412/ERR3528412.sra 2020-06-21T08:07:42 prefetch.2.10.7: 1) Downloading 'ERR3528413'... 2020-06-21T08:07:42 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:08:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:08:37 prefetch.2.10.7: 'ERR3528413' is valid 2020-06-21T08:08:37 prefetch.2.10.7: 1) 'ERR3528413' was downloaded successfully Read 7278302 spots for ERR3528413/ERR3528413.sra Written 7278302 spots for ERR3528413/ERR3528413.sra 2020-06-21T08:09:13 prefetch.2.10.7: 1) Downloading 'ERR3528414'... 2020-06-21T08:09:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:10:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:10:46 prefetch.2.10.7: 'ERR3528414' is valid 2020-06-21T08:10:46 prefetch.2.10.7: 1) 'ERR3528414' was downloaded successfully Read 7131690 spots for ERR3528414/ERR3528414.sra Written 7131690 spots for ERR3528414/ERR3528414.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: 00:06:54 28845041 reads; of these: 28845041 (100.00%) were unpaired; of these: 5604720 (19.43%) aligned 0 times 15958112 (55.32%) aligned exactly 1 time 7282209 (25.25%) aligned >1 times 80.57% overall alignment rate Time searching: 00:06:54 Overall time: 00:06:54 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 10671707 / 23240321 = 0.4592 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 @ Sun, 21 Jun 2020 17:22:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.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 @ Sun, 21 Jun 2020 17:22:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:22:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:22:39: 1000000 INFO @ Sun, 21 Jun 2020 17:22:45: 2000000 INFO @ Sun, 21 Jun 2020 17:22:51: 3000000 INFO @ Sun, 21 Jun 2020 17:22:57: 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 @ Sun, 21 Jun 2020 17:23:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.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 @ Sun, 21 Jun 2020 17:23:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:23:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:23:03: 5000000 INFO @ Sun, 21 Jun 2020 17:23:10: 1000000 INFO @ Sun, 21 Jun 2020 17:23:10: 6000000 INFO @ Sun, 21 Jun 2020 17:23:16: 2000000 INFO @ Sun, 21 Jun 2020 17:23:17: 7000000 INFO @ Sun, 21 Jun 2020 17:23:23: 3000000 INFO @ Sun, 21 Jun 2020 17:23:24: 8000000 INFO @ Sun, 21 Jun 2020 17:23:30: 4000000 INFO @ Sun, 21 Jun 2020 17:23:31: 9000000 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 @ Sun, 21 Jun 2020 17:23:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.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 @ Sun, 21 Jun 2020 17:23:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:23:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:23:37: 5000000 INFO @ Sun, 21 Jun 2020 17:23:37: 10000000 INFO @ Sun, 21 Jun 2020 17:23:40: 1000000 INFO @ Sun, 21 Jun 2020 17:23:43: 6000000 INFO @ Sun, 21 Jun 2020 17:23:45: 11000000 INFO @ Sun, 21 Jun 2020 17:23:46: 2000000 INFO @ Sun, 21 Jun 2020 17:23:50: 7000000 INFO @ Sun, 21 Jun 2020 17:23:51: 12000000 INFO @ Sun, 21 Jun 2020 17:23:53: 3000000 INFO @ Sun, 21 Jun 2020 17:23:55: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:23:55: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:23:55: #1 total tags in treatment: 12568614 INFO @ Sun, 21 Jun 2020 17:23:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:23:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:23:56: #1 tags after filtering in treatment: 12568525 INFO @ Sun, 21 Jun 2020 17:23:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:23:56: #1 finished! INFO @ Sun, 21 Jun 2020 17:23:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:23:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:23:57: 8000000 INFO @ Sun, 21 Jun 2020 17:23:57: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:23:57: start model_add_line... INFO @ Sun, 21 Jun 2020 17:23:57: start X-correlation... INFO @ Sun, 21 Jun 2020 17:23:57: end of X-cor INFO @ Sun, 21 Jun 2020 17:23:57: #2 finished! INFO @ Sun, 21 Jun 2020 17:23:57: #2 predicted fragment length is 179 bps INFO @ Sun, 21 Jun 2020 17:23:57: #2 alternative fragment length(s) may be 179 bps INFO @ Sun, 21 Jun 2020 17:23:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05_model.r INFO @ Sun, 21 Jun 2020 17:23:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:23:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:24:00: 4000000 INFO @ Sun, 21 Jun 2020 17:24:03: 9000000 INFO @ Sun, 21 Jun 2020 17:24:07: 5000000 INFO @ Sun, 21 Jun 2020 17:24:10: 10000000 INFO @ Sun, 21 Jun 2020 17:24:13: 6000000 INFO @ Sun, 21 Jun 2020 17:24:17: 11000000 INFO @ Sun, 21 Jun 2020 17:24:20: 7000000 INFO @ Sun, 21 Jun 2020 17:24:24: 12000000 INFO @ Sun, 21 Jun 2020 17:24:27: 8000000 INFO @ Sun, 21 Jun 2020 17:24:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:24:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:24:28: #1 total tags in treatment: 12568614 INFO @ Sun, 21 Jun 2020 17:24:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:24:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:24:28: #1 tags after filtering in treatment: 12568525 INFO @ Sun, 21 Jun 2020 17:24:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:24:28: #1 finished! INFO @ Sun, 21 Jun 2020 17:24:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:24:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:24:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:24:29: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:24:29: start model_add_line... INFO @ Sun, 21 Jun 2020 17:24:29: start X-correlation... INFO @ Sun, 21 Jun 2020 17:24:29: end of X-cor INFO @ Sun, 21 Jun 2020 17:24:29: #2 finished! INFO @ Sun, 21 Jun 2020 17:24:29: #2 predicted fragment length is 179 bps INFO @ Sun, 21 Jun 2020 17:24:29: #2 alternative fragment length(s) may be 179 bps INFO @ Sun, 21 Jun 2020 17:24:29: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10_model.r INFO @ Sun, 21 Jun 2020 17:24:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:24:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:24:33: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:24:39: 10000000 INFO @ Sun, 21 Jun 2020 17:24:45: 11000000 INFO @ Sun, 21 Jun 2020 17:24:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:24:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:24:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.05_summits.bed INFO @ Sun, 21 Jun 2020 17:24:46: Done! pass1 - making usageList (637 chroms): 2 millis pass2 - checking and writing primary data (6937 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:24:51: 12000000 INFO @ Sun, 21 Jun 2020 17:24:55: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 17:24:55: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 17:24:55: #1 total tags in treatment: 12568614 INFO @ Sun, 21 Jun 2020 17:24:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:24:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:24:56: #1 tags after filtering in treatment: 12568525 INFO @ Sun, 21 Jun 2020 17:24:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:24:56: #1 finished! INFO @ Sun, 21 Jun 2020 17:24:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:24:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:24:57: #2 number of paired peaks: 3431 INFO @ Sun, 21 Jun 2020 17:24:57: start model_add_line... INFO @ Sun, 21 Jun 2020 17:24:57: start X-correlation... INFO @ Sun, 21 Jun 2020 17:24:57: end of X-cor INFO @ Sun, 21 Jun 2020 17:24:57: #2 finished! INFO @ Sun, 21 Jun 2020 17:24:57: #2 predicted fragment length is 179 bps INFO @ Sun, 21 Jun 2020 17:24:57: #2 alternative fragment length(s) may be 179 bps INFO @ Sun, 21 Jun 2020 17:24:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20_model.r INFO @ Sun, 21 Jun 2020 17:24:57: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:24:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:25:02: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:25:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:25:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:25:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.10_summits.bed INFO @ Sun, 21 Jun 2020 17:25:19: Done! pass1 - making usageList (583 chroms): 2 millis pass2 - checking and writing primary data (4580 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:25:30: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:25:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:25:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:25:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/ERX3548052/ERX3548052.20_summits.bed INFO @ Sun, 21 Jun 2020 17:25:46: Done! pass1 - making usageList (500 chroms): 2 millis pass2 - checking and writing primary data (2758 records, 4 fields): 16 millis CompletedMACS2peakCalling