Job ID = 6458968 SRX = SRX5827836 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:56:40 prefetch.2.10.7: 1) Downloading 'SRR9051587'... 2020-06-21T12:56:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:01:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:01:57 prefetch.2.10.7: 1) 'SRR9051587' was downloaded successfully 2020-06-21T13:01:57 prefetch.2.10.7: 'SRR9051587' has 0 unresolved dependencies Read 35746292 spots for SRR9051587/SRR9051587.sra Written 35746292 spots for SRR9051587/SRR9051587.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: 00:00:01 Multiseed full-index search: 00:08:36 35746292 reads; of these: 35746292 (100.00%) were unpaired; of these: 2637250 (7.38%) aligned 0 times 28650982 (80.15%) aligned exactly 1 time 4458060 (12.47%) aligned >1 times 92.62% overall alignment rate Time searching: 00:08:37 Overall time: 00:08:37 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 16 files... [bam_rmdupse_core] 14407314 / 33109042 = 0.4351 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 22:20:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.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 22:20:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:20:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:20:52: 1000000 INFO @ Sun, 21 Jun 2020 22:20:57: 2000000 INFO @ Sun, 21 Jun 2020 22:21:03: 3000000 INFO @ Sun, 21 Jun 2020 22:21:08: 4000000 INFO @ Sun, 21 Jun 2020 22:21:13: 5000000 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 22:21:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.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 22:21:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:21:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:21:19: 6000000 INFO @ Sun, 21 Jun 2020 22:21:23: 1000000 INFO @ Sun, 21 Jun 2020 22:21:25: 7000000 INFO @ Sun, 21 Jun 2020 22:21:29: 2000000 INFO @ Sun, 21 Jun 2020 22:21:30: 8000000 INFO @ Sun, 21 Jun 2020 22:21:35: 3000000 INFO @ Sun, 21 Jun 2020 22:21:36: 9000000 INFO @ Sun, 21 Jun 2020 22:21:42: 4000000 INFO @ Sun, 21 Jun 2020 22:21:42: 10000000 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 22:21:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.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 22:21:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:21:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:21:48: 5000000 INFO @ Sun, 21 Jun 2020 22:21:48: 11000000 INFO @ Sun, 21 Jun 2020 22:21:53: 1000000 INFO @ Sun, 21 Jun 2020 22:21:54: 6000000 INFO @ Sun, 21 Jun 2020 22:21:55: 12000000 INFO @ Sun, 21 Jun 2020 22:21:59: 2000000 INFO @ Sun, 21 Jun 2020 22:22:00: 7000000 INFO @ Sun, 21 Jun 2020 22:22:01: 13000000 INFO @ Sun, 21 Jun 2020 22:22:05: 3000000 INFO @ Sun, 21 Jun 2020 22:22:06: 8000000 INFO @ Sun, 21 Jun 2020 22:22:07: 14000000 INFO @ Sun, 21 Jun 2020 22:22:11: 4000000 INFO @ Sun, 21 Jun 2020 22:22:12: 9000000 INFO @ Sun, 21 Jun 2020 22:22:13: 15000000 INFO @ Sun, 21 Jun 2020 22:22:17: 5000000 INFO @ Sun, 21 Jun 2020 22:22:18: 10000000 INFO @ Sun, 21 Jun 2020 22:22:19: 16000000 INFO @ Sun, 21 Jun 2020 22:22:23: 6000000 INFO @ Sun, 21 Jun 2020 22:22:24: 11000000 INFO @ Sun, 21 Jun 2020 22:22:25: 17000000 INFO @ Sun, 21 Jun 2020 22:22:30: 7000000 INFO @ Sun, 21 Jun 2020 22:22:30: 12000000 INFO @ Sun, 21 Jun 2020 22:22:32: 18000000 INFO @ Sun, 21 Jun 2020 22:22:36: 8000000 INFO @ Sun, 21 Jun 2020 22:22:36: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:22:36: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:22:36: #1 total tags in treatment: 18701728 INFO @ Sun, 21 Jun 2020 22:22:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:22:36: #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 22:22:36: 13000000 INFO @ Sun, 21 Jun 2020 22:22:37: #1 tags after filtering in treatment: 18701727 INFO @ Sun, 21 Jun 2020 22:22:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:22:37: #1 finished! INFO @ Sun, 21 Jun 2020 22:22:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:22:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:22:38: #2 number of paired peaks: 1710 INFO @ Sun, 21 Jun 2020 22:22:38: start model_add_line... INFO @ Sun, 21 Jun 2020 22:22:38: start X-correlation... INFO @ Sun, 21 Jun 2020 22:22:38: end of X-cor INFO @ Sun, 21 Jun 2020 22:22:38: #2 finished! INFO @ Sun, 21 Jun 2020 22:22:38: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:22:38: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:22:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05_model.r INFO @ Sun, 21 Jun 2020 22:22:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:22:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:22:42: 9000000 INFO @ Sun, 21 Jun 2020 22:22:43: 14000000 INFO @ Sun, 21 Jun 2020 22:22:48: 10000000 INFO @ Sun, 21 Jun 2020 22:22:49: 15000000 INFO @ Sun, 21 Jun 2020 22:22:54: 11000000 INFO @ Sun, 21 Jun 2020 22:22:55: 16000000 INFO @ Sun, 21 Jun 2020 22:23:00: 12000000 INFO @ Sun, 21 Jun 2020 22:23:01: 17000000 INFO @ Sun, 21 Jun 2020 22:23:05: 13000000 INFO @ Sun, 21 Jun 2020 22:23:07: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:23:11: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:23:11: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:23:11: #1 total tags in treatment: 18701728 INFO @ Sun, 21 Jun 2020 22:23:11: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:23:11: #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 22:23:11: 14000000 INFO @ Sun, 21 Jun 2020 22:23:12: #1 tags after filtering in treatment: 18701727 INFO @ Sun, 21 Jun 2020 22:23:12: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:23:12: #1 finished! INFO @ Sun, 21 Jun 2020 22:23:12: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:23:12: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:23:13: #2 number of paired peaks: 1710 INFO @ Sun, 21 Jun 2020 22:23:13: start model_add_line... INFO @ Sun, 21 Jun 2020 22:23:13: start X-correlation... INFO @ Sun, 21 Jun 2020 22:23:13: end of X-cor INFO @ Sun, 21 Jun 2020 22:23:13: #2 finished! INFO @ Sun, 21 Jun 2020 22:23:13: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:23:13: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:23:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10_model.r INFO @ Sun, 21 Jun 2020 22:23:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:23:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:23:17: 15000000 INFO @ Sun, 21 Jun 2020 22:23:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:23:22: 16000000 INFO @ Sun, 21 Jun 2020 22:23:28: 17000000 INFO @ Sun, 21 Jun 2020 22:23:33: 18000000 INFO @ Sun, 21 Jun 2020 22:23:37: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:23:37: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:23:37: #1 total tags in treatment: 18701728 INFO @ Sun, 21 Jun 2020 22:23:37: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:23:37: #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 22:23:38: #1 tags after filtering in treatment: 18701727 INFO @ Sun, 21 Jun 2020 22:23:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:23:38: #1 finished! INFO @ Sun, 21 Jun 2020 22:23:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:23:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:23:39: #2 number of paired peaks: 1710 INFO @ Sun, 21 Jun 2020 22:23:39: start model_add_line... INFO @ Sun, 21 Jun 2020 22:23:39: start X-correlation... INFO @ Sun, 21 Jun 2020 22:23:39: end of X-cor INFO @ Sun, 21 Jun 2020 22:23:39: #2 finished! INFO @ Sun, 21 Jun 2020 22:23:39: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 22:23:39: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 22:23:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20_model.r INFO @ Sun, 21 Jun 2020 22:23:39: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:23:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:23:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:23:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:23:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.05_summits.bed INFO @ Sun, 21 Jun 2020 22:23:40: Done! pass1 - making usageList (437 chroms): 2 millis pass2 - checking and writing primary data (6283 records, 4 fields): 18 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:23:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:24:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:24:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:24:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.10_summits.bed INFO @ Sun, 21 Jun 2020 22:24:16: Done! pass1 - making usageList (357 chroms): 2 millis pass2 - checking and writing primary data (3884 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:24:21: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:24:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:24:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:24:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5827836/SRX5827836.20_summits.bed INFO @ Sun, 21 Jun 2020 22:24:41: Done! pass1 - making usageList (183 chroms): 1 millis pass2 - checking and writing primary data (2003 records, 4 fields): 9 millis CompletedMACS2peakCalling