Job ID = 6455216 SRX = SRX287564 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:54:10 prefetch.2.10.7: 1) Downloading 'SRR869707'... 2020-06-21T09:54:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:56:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:56:28 prefetch.2.10.7: 'SRR869707' is valid 2020-06-21T09:56:28 prefetch.2.10.7: 1) 'SRR869707' was downloaded successfully Read 14764622 spots for SRR869707/SRR869707.sra Written 14764622 spots for SRR869707/SRR869707.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: 00:05:17 14764622 reads; of these: 14764622 (100.00%) were unpaired; of these: 379848 (2.57%) aligned 0 times 5233925 (35.45%) aligned exactly 1 time 9150849 (61.98%) aligned >1 times 97.43% overall alignment rate Time searching: 00:05:17 Overall time: 00:05:17 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_rmdupse_core] 3712350 / 14384774 = 0.2581 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 19:06:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.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 19:06:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:18: 1000000 INFO @ Sun, 21 Jun 2020 19:06:23: 2000000 INFO @ Sun, 21 Jun 2020 19:06:29: 3000000 INFO @ Sun, 21 Jun 2020 19:06:35: 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 19:06:40: 5000000 INFO @ Sun, 21 Jun 2020 19:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.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 19:06:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:46: 6000000 INFO @ Sun, 21 Jun 2020 19:06:48: 1000000 INFO @ Sun, 21 Jun 2020 19:06:52: 7000000 INFO @ Sun, 21 Jun 2020 19:06:54: 2000000 INFO @ Sun, 21 Jun 2020 19:06:58: 8000000 INFO @ Sun, 21 Jun 2020 19:07:00: 3000000 INFO @ Sun, 21 Jun 2020 19:07:04: 9000000 INFO @ Sun, 21 Jun 2020 19:07:06: 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 @ Sun, 21 Jun 2020 19:07:10: 10000000 INFO @ Sun, 21 Jun 2020 19:07:11: 5000000 INFO @ Sun, 21 Jun 2020 19:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.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 19:07:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:07:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:07:14: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:07:14: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:07:14: #1 total tags in treatment: 10672424 INFO @ Sun, 21 Jun 2020 19:07:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:14: #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 19:07:15: #1 tags after filtering in treatment: 10672377 INFO @ Sun, 21 Jun 2020 19:07:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:15: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:16: #2 number of paired peaks: 3401 INFO @ Sun, 21 Jun 2020 19:07:16: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:16: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:16: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:16: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:16: #2 predicted fragment length is 77 bps INFO @ Sun, 21 Jun 2020 19:07:16: #2 alternative fragment length(s) may be 3,77 bps INFO @ Sun, 21 Jun 2020 19:07:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05_model.r INFO @ Sun, 21 Jun 2020 19:07:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:17: 6000000 INFO @ Sun, 21 Jun 2020 19:07:18: 1000000 INFO @ Sun, 21 Jun 2020 19:07:23: 7000000 INFO @ Sun, 21 Jun 2020 19:07:24: 2000000 INFO @ Sun, 21 Jun 2020 19:07:29: 8000000 INFO @ Sun, 21 Jun 2020 19:07:30: 3000000 INFO @ Sun, 21 Jun 2020 19:07:36: 9000000 INFO @ Sun, 21 Jun 2020 19:07:36: 4000000 INFO @ Sun, 21 Jun 2020 19:07:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:07:42: 10000000 INFO @ Sun, 21 Jun 2020 19:07:42: 5000000 INFO @ Sun, 21 Jun 2020 19:07:46: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:07:46: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:07:46: #1 total tags in treatment: 10672424 INFO @ Sun, 21 Jun 2020 19:07:46: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:46: #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 19:07:46: #1 tags after filtering in treatment: 10672377 INFO @ Sun, 21 Jun 2020 19:07:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:46: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:47: #2 number of paired peaks: 3401 INFO @ Sun, 21 Jun 2020 19:07:47: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:47: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:47: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:47: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:47: #2 predicted fragment length is 77 bps INFO @ Sun, 21 Jun 2020 19:07:47: #2 alternative fragment length(s) may be 3,77 bps INFO @ Sun, 21 Jun 2020 19:07:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10_model.r INFO @ Sun, 21 Jun 2020 19:07:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:47: 6000000 INFO @ Sun, 21 Jun 2020 19:07:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:07:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:07:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.05_summits.bed INFO @ Sun, 21 Jun 2020 19:07:50: Done! pass1 - making usageList (966 chroms): 2 millis pass2 - checking and writing primary data (4796 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:07:53: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:07:59: 8000000 INFO @ Sun, 21 Jun 2020 19:08:05: 9000000 INFO @ Sun, 21 Jun 2020 19:08:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:08:10: 10000000 INFO @ Sun, 21 Jun 2020 19:08:14: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 19:08:14: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 19:08:14: #1 total tags in treatment: 10672424 INFO @ Sun, 21 Jun 2020 19:08:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:08:14: #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 19:08:15: #1 tags after filtering in treatment: 10672377 INFO @ Sun, 21 Jun 2020 19:08:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:08:15: #1 finished! INFO @ Sun, 21 Jun 2020 19:08:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:08:15: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:08:16: #2 number of paired peaks: 3401 INFO @ Sun, 21 Jun 2020 19:08:16: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:16: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:16: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:16: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:16: #2 predicted fragment length is 77 bps INFO @ Sun, 21 Jun 2020 19:08:16: #2 alternative fragment length(s) may be 3,77 bps INFO @ Sun, 21 Jun 2020 19:08:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20_model.r INFO @ Sun, 21 Jun 2020 19:08:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:08:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:08:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:08:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.10_summits.bed INFO @ Sun, 21 Jun 2020 19:08:20: Done! pass1 - making usageList (812 chroms): 1 millis pass2 - checking and writing primary data (2521 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:08:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:08:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:08:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:08:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287564/SRX287564.20_summits.bed INFO @ Sun, 21 Jun 2020 19:08:50: Done! pass1 - making usageList (649 chroms): 1 millis pass2 - checking and writing primary data (1696 records, 4 fields): 18 millis CompletedMACS2peakCalling