Job ID = 6456852 SRX = SRX3981734 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:13:54 prefetch.2.10.7: 1) Downloading 'SRR7050614'... 2020-06-21T11:13:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:15:13 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:15:13 prefetch.2.10.7: 'SRR7050614' is valid 2020-06-21T11:15:13 prefetch.2.10.7: 1) 'SRR7050614' was downloaded successfully 2020-06-21T11:15:13 prefetch.2.10.7: 'SRR7050614' has 0 unresolved dependencies Read 14267630 spots for SRR7050614/SRR7050614.sra Written 14267630 spots for SRR7050614/SRR7050614.sra 2020-06-21T11:16:07 prefetch.2.10.7: 1) Downloading 'SRR7050615'... 2020-06-21T11:16:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:17:43 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:17:43 prefetch.2.10.7: 'SRR7050615' is valid 2020-06-21T11:17:43 prefetch.2.10.7: 1) 'SRR7050615' was downloaded successfully 2020-06-21T11:17:43 prefetch.2.10.7: 'SRR7050615' has 0 unresolved dependencies Read 14425170 spots for SRR7050615/SRR7050615.sra Written 14425170 spots for SRR7050615/SRR7050615.sra 2020-06-21T11:18:38 prefetch.2.10.7: 1) Downloading 'SRR7050616'... 2020-06-21T11:18:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:19:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:19:58 prefetch.2.10.7: 'SRR7050616' is valid 2020-06-21T11:19:58 prefetch.2.10.7: 1) 'SRR7050616' was downloaded successfully 2020-06-21T11:19:58 prefetch.2.10.7: 'SRR7050616' has 0 unresolved dependencies Read 14489039 spots for SRR7050616/SRR7050616.sra Written 14489039 spots for SRR7050616/SRR7050616.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: 00:11:25 43181839 reads; of these: 43181839 (100.00%) were unpaired; of these: 1128257 (2.61%) aligned 0 times 33569444 (77.74%) aligned exactly 1 time 8484138 (19.65%) aligned >1 times 97.39% overall alignment rate Time searching: 00:11:25 Overall time: 00:11:25 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 20 files... [bam_rmdupse_core] 15281735 / 42053582 = 0.3634 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 20:40:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.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 20:40:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:40:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:40:36: 1000000 INFO @ Sun, 21 Jun 2020 20:40:42: 2000000 INFO @ Sun, 21 Jun 2020 20:40:48: 3000000 INFO @ Sun, 21 Jun 2020 20:40:54: 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 20:41:00: 5000000 INFO @ Sun, 21 Jun 2020 20:41:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.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 20:41:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:41:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:41:07: 6000000 INFO @ Sun, 21 Jun 2020 20:41:07: 1000000 INFO @ Sun, 21 Jun 2020 20:41:13: 7000000 INFO @ Sun, 21 Jun 2020 20:41:14: 2000000 INFO @ Sun, 21 Jun 2020 20:41:20: 8000000 INFO @ Sun, 21 Jun 2020 20:41:20: 3000000 INFO @ Sun, 21 Jun 2020 20:41:27: 9000000 INFO @ Sun, 21 Jun 2020 20:41:27: 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 20:41:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.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 20:41:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:41:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:41:33: 10000000 INFO @ Sun, 21 Jun 2020 20:41:34: 5000000 INFO @ Sun, 21 Jun 2020 20:41:37: 1000000 INFO @ Sun, 21 Jun 2020 20:41:40: 11000000 INFO @ Sun, 21 Jun 2020 20:41:40: 6000000 INFO @ Sun, 21 Jun 2020 20:41:44: 2000000 INFO @ Sun, 21 Jun 2020 20:41:47: 12000000 INFO @ Sun, 21 Jun 2020 20:41:47: 7000000 INFO @ Sun, 21 Jun 2020 20:41:51: 3000000 INFO @ Sun, 21 Jun 2020 20:41:53: 13000000 INFO @ Sun, 21 Jun 2020 20:41:53: 8000000 INFO @ Sun, 21 Jun 2020 20:41:58: 4000000 INFO @ Sun, 21 Jun 2020 20:42:00: 14000000 INFO @ Sun, 21 Jun 2020 20:42:00: 9000000 INFO @ Sun, 21 Jun 2020 20:42:04: 5000000 INFO @ Sun, 21 Jun 2020 20:42:07: 15000000 INFO @ Sun, 21 Jun 2020 20:42:07: 10000000 INFO @ Sun, 21 Jun 2020 20:42:12: 6000000 INFO @ Sun, 21 Jun 2020 20:42:14: 16000000 INFO @ Sun, 21 Jun 2020 20:42:15: 11000000 INFO @ Sun, 21 Jun 2020 20:42:19: 7000000 INFO @ Sun, 21 Jun 2020 20:42:21: 17000000 INFO @ Sun, 21 Jun 2020 20:42:22: 12000000 INFO @ Sun, 21 Jun 2020 20:42:26: 8000000 INFO @ Sun, 21 Jun 2020 20:42:28: 18000000 INFO @ Sun, 21 Jun 2020 20:42:30: 13000000 INFO @ Sun, 21 Jun 2020 20:42:34: 9000000 INFO @ Sun, 21 Jun 2020 20:42:35: 19000000 INFO @ Sun, 21 Jun 2020 20:42:37: 14000000 INFO @ Sun, 21 Jun 2020 20:42:41: 10000000 INFO @ Sun, 21 Jun 2020 20:42:42: 20000000 INFO @ Sun, 21 Jun 2020 20:42:44: 15000000 INFO @ Sun, 21 Jun 2020 20:42:48: 11000000 INFO @ Sun, 21 Jun 2020 20:42:49: 21000000 INFO @ Sun, 21 Jun 2020 20:42:51: 16000000 INFO @ Sun, 21 Jun 2020 20:42:55: 12000000 INFO @ Sun, 21 Jun 2020 20:42:57: 22000000 INFO @ Sun, 21 Jun 2020 20:42:58: 17000000 INFO @ Sun, 21 Jun 2020 20:43:02: 13000000 INFO @ Sun, 21 Jun 2020 20:43:04: 23000000 INFO @ Sun, 21 Jun 2020 20:43:06: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:43:09: 14000000 INFO @ Sun, 21 Jun 2020 20:43:12: 24000000 INFO @ Sun, 21 Jun 2020 20:43:13: 19000000 INFO @ Sun, 21 Jun 2020 20:43:17: 15000000 INFO @ Sun, 21 Jun 2020 20:43:21: 25000000 INFO @ Sun, 21 Jun 2020 20:43:22: 20000000 INFO @ Sun, 21 Jun 2020 20:43:24: 16000000 INFO @ Sun, 21 Jun 2020 20:43:28: 26000000 INFO @ Sun, 21 Jun 2020 20:43:30: 21000000 INFO @ Sun, 21 Jun 2020 20:43:32: 17000000 INFO @ Sun, 21 Jun 2020 20:43:35: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:43:35: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:43:35: #1 total tags in treatment: 26771847 INFO @ Sun, 21 Jun 2020 20:43:35: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:43:35: #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 20:43:36: #1 tags after filtering in treatment: 26771782 INFO @ Sun, 21 Jun 2020 20:43:36: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:43:36: #1 finished! INFO @ Sun, 21 Jun 2020 20:43:36: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:43:36: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:43:37: 22000000 INFO @ Sun, 21 Jun 2020 20:43:38: #2 number of paired peaks: 3902 INFO @ Sun, 21 Jun 2020 20:43:38: start model_add_line... INFO @ Sun, 21 Jun 2020 20:43:38: start X-correlation... INFO @ Sun, 21 Jun 2020 20:43:38: end of X-cor INFO @ Sun, 21 Jun 2020 20:43:38: #2 finished! INFO @ Sun, 21 Jun 2020 20:43:38: #2 predicted fragment length is 216 bps INFO @ Sun, 21 Jun 2020 20:43:38: #2 alternative fragment length(s) may be 4,216 bps INFO @ Sun, 21 Jun 2020 20:43:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05_model.r INFO @ Sun, 21 Jun 2020 20:43:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:43:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:43:39: 18000000 INFO @ Sun, 21 Jun 2020 20:43:45: 23000000 INFO @ Sun, 21 Jun 2020 20:43:46: 19000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:43:53: 24000000 INFO @ Sun, 21 Jun 2020 20:43:53: 20000000 INFO @ Sun, 21 Jun 2020 20:44:01: 21000000 INFO @ Sun, 21 Jun 2020 20:44:01: 25000000 INFO @ Sun, 21 Jun 2020 20:44:08: 22000000 INFO @ Sun, 21 Jun 2020 20:44:09: 26000000 INFO @ Sun, 21 Jun 2020 20:44:15: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:44:15: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:44:15: #1 total tags in treatment: 26771847 INFO @ Sun, 21 Jun 2020 20:44:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:44:15: #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 20:44:16: 23000000 INFO @ Sun, 21 Jun 2020 20:44:16: #1 tags after filtering in treatment: 26771782 INFO @ Sun, 21 Jun 2020 20:44:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:44:16: #1 finished! INFO @ Sun, 21 Jun 2020 20:44:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:44:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:44:18: #2 number of paired peaks: 3902 INFO @ Sun, 21 Jun 2020 20:44:18: start model_add_line... INFO @ Sun, 21 Jun 2020 20:44:18: start X-correlation... INFO @ Sun, 21 Jun 2020 20:44:18: end of X-cor INFO @ Sun, 21 Jun 2020 20:44:18: #2 finished! INFO @ Sun, 21 Jun 2020 20:44:18: #2 predicted fragment length is 216 bps INFO @ Sun, 21 Jun 2020 20:44:18: #2 alternative fragment length(s) may be 4,216 bps INFO @ Sun, 21 Jun 2020 20:44:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10_model.r INFO @ Sun, 21 Jun 2020 20:44:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:44:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:44:22: 24000000 INFO @ Sun, 21 Jun 2020 20:44:27: 25000000 INFO @ Sun, 21 Jun 2020 20:44:33: 26000000 INFO @ Sun, 21 Jun 2020 20:44:38: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:44:38: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:44:38: #1 total tags in treatment: 26771847 INFO @ Sun, 21 Jun 2020 20:44:38: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:44:38: #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 20:44:38: #1 tags after filtering in treatment: 26771782 INFO @ Sun, 21 Jun 2020 20:44:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:44:38: #1 finished! INFO @ Sun, 21 Jun 2020 20:44:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:44:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:44:40: #2 number of paired peaks: 3902 INFO @ Sun, 21 Jun 2020 20:44:40: start model_add_line... INFO @ Sun, 21 Jun 2020 20:44:41: start X-correlation... INFO @ Sun, 21 Jun 2020 20:44:41: end of X-cor INFO @ Sun, 21 Jun 2020 20:44:41: #2 finished! INFO @ Sun, 21 Jun 2020 20:44:41: #2 predicted fragment length is 216 bps INFO @ Sun, 21 Jun 2020 20:44:41: #2 alternative fragment length(s) may be 4,216 bps INFO @ Sun, 21 Jun 2020 20:44:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20_model.r INFO @ Sun, 21 Jun 2020 20:44:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:44:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:44:51: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:45:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:45:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:45:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.05_summits.bed INFO @ Sun, 21 Jun 2020 20:45:18: Done! pass1 - making usageList (243 chroms): 2 millis pass2 - checking and writing primary data (9623 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:45:33: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:45:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:46:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:46:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:46:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.10_summits.bed INFO @ Sun, 21 Jun 2020 20:46:01: Done! pass1 - making usageList (198 chroms): 2 millis pass2 - checking and writing primary data (7219 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:46:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:46:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:46:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981734/SRX3981734.20_summits.bed INFO @ Sun, 21 Jun 2020 20:46:19: Done! pass1 - making usageList (160 chroms): 1 millis pass2 - checking and writing primary data (4737 records, 4 fields): 9 millis CompletedMACS2peakCalling