Job ID = 6458286 SRX = SRX5011043 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:22:05 prefetch.2.10.7: 1) Downloading 'SRR8191492'... 2020-06-21T12:22:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:24:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:24:15 prefetch.2.10.7: 1) 'SRR8191492' was downloaded successfully 2020-06-21T12:24:15 prefetch.2.10.7: 'SRR8191492' has 0 unresolved dependencies Read 36857352 spots for SRR8191492/SRR8191492.sra Written 36857352 spots for SRR8191492/SRR8191492.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: 00:08:59 36857352 reads; of these: 36857352 (100.00%) were unpaired; of these: 2894447 (7.85%) aligned 0 times 26824364 (72.78%) aligned exactly 1 time 7138541 (19.37%) aligned >1 times 92.15% overall alignment rate Time searching: 00:08:59 Overall time: 00:08:59 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] 19836446 / 33962905 = 0.5841 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 21:39:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.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 21:39:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:39:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:03: 1000000 INFO @ Sun, 21 Jun 2020 21:40:08: 2000000 INFO @ Sun, 21 Jun 2020 21:40:12: 3000000 INFO @ Sun, 21 Jun 2020 21:40:17: 4000000 INFO @ Sun, 21 Jun 2020 21:40:22: 5000000 INFO @ Sun, 21 Jun 2020 21:40:26: 6000000 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 21:40:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.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 21:40:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:31: 7000000 INFO @ Sun, 21 Jun 2020 21:40:33: 1000000 INFO @ Sun, 21 Jun 2020 21:40:36: 8000000 INFO @ Sun, 21 Jun 2020 21:40:38: 2000000 INFO @ Sun, 21 Jun 2020 21:40:41: 9000000 INFO @ Sun, 21 Jun 2020 21:40:44: 3000000 INFO @ Sun, 21 Jun 2020 21:40:46: 10000000 INFO @ Sun, 21 Jun 2020 21:40:49: 4000000 INFO @ Sun, 21 Jun 2020 21:40:52: 11000000 INFO @ Sun, 21 Jun 2020 21:40:54: 5000000 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 21:40:57: 12000000 INFO @ Sun, 21 Jun 2020 21:40:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.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 21:40:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:59: 6000000 INFO @ Sun, 21 Jun 2020 21:41:02: 13000000 INFO @ Sun, 21 Jun 2020 21:41:04: 1000000 INFO @ Sun, 21 Jun 2020 21:41:04: 7000000 INFO @ Sun, 21 Jun 2020 21:41:08: 14000000 INFO @ Sun, 21 Jun 2020 21:41:08: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:41:08: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:41:08: #1 total tags in treatment: 14126459 INFO @ Sun, 21 Jun 2020 21:41:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:41:08: #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 21:41:09: #1 tags after filtering in treatment: 14126373 INFO @ Sun, 21 Jun 2020 21:41:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:41:09: #1 finished! INFO @ Sun, 21 Jun 2020 21:41:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:41:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:41:09: 8000000 INFO @ Sun, 21 Jun 2020 21:41:10: 2000000 INFO @ Sun, 21 Jun 2020 21:41:10: #2 number of paired peaks: 5686 INFO @ Sun, 21 Jun 2020 21:41:10: start model_add_line... INFO @ Sun, 21 Jun 2020 21:41:10: start X-correlation... INFO @ Sun, 21 Jun 2020 21:41:10: end of X-cor INFO @ Sun, 21 Jun 2020 21:41:10: #2 finished! INFO @ Sun, 21 Jun 2020 21:41:10: #2 predicted fragment length is 246 bps INFO @ Sun, 21 Jun 2020 21:41:10: #2 alternative fragment length(s) may be 246 bps INFO @ Sun, 21 Jun 2020 21:41:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05_model.r INFO @ Sun, 21 Jun 2020 21:41:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:41:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:41:15: 9000000 INFO @ Sun, 21 Jun 2020 21:41:16: 3000000 INFO @ Sun, 21 Jun 2020 21:41:20: 10000000 INFO @ Sun, 21 Jun 2020 21:41:21: 4000000 INFO @ Sun, 21 Jun 2020 21:41:25: 11000000 INFO @ Sun, 21 Jun 2020 21:41:27: 5000000 INFO @ Sun, 21 Jun 2020 21:41:31: 12000000 INFO @ Sun, 21 Jun 2020 21:41:33: 6000000 INFO @ Sun, 21 Jun 2020 21:41:36: 13000000 INFO @ Sun, 21 Jun 2020 21:41:39: 7000000 INFO @ Sun, 21 Jun 2020 21:41:41: 14000000 INFO @ Sun, 21 Jun 2020 21:41:42: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:41:42: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:41:42: #1 total tags in treatment: 14126459 INFO @ Sun, 21 Jun 2020 21:41:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:41:42: #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 21:41:43: #1 tags after filtering in treatment: 14126373 INFO @ Sun, 21 Jun 2020 21:41:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:41:43: #1 finished! INFO @ Sun, 21 Jun 2020 21:41:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:41:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:41:44: #2 number of paired peaks: 5686 INFO @ Sun, 21 Jun 2020 21:41:44: start model_add_line... INFO @ Sun, 21 Jun 2020 21:41:44: start X-correlation... INFO @ Sun, 21 Jun 2020 21:41:44: end of X-cor INFO @ Sun, 21 Jun 2020 21:41:44: #2 finished! INFO @ Sun, 21 Jun 2020 21:41:44: #2 predicted fragment length is 246 bps INFO @ Sun, 21 Jun 2020 21:41:44: #2 alternative fragment length(s) may be 246 bps INFO @ Sun, 21 Jun 2020 21:41:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10_model.r INFO @ Sun, 21 Jun 2020 21:41:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:41:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:41:44: 8000000 INFO @ Sun, 21 Jun 2020 21:41:50: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:41:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:55: 10000000 INFO @ Sun, 21 Jun 2020 21:42:01: 11000000 INFO @ Sun, 21 Jun 2020 21:42:07: 12000000 INFO @ Sun, 21 Jun 2020 21:42:12: 13000000 INFO @ Sun, 21 Jun 2020 21:42:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:42:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:42:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.05_summits.bed INFO @ Sun, 21 Jun 2020 21:42:13: Done! pass1 - making usageList (726 chroms): 2 millis pass2 - checking and writing primary data (11058 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:42:18: 14000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:42:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:42:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:42:19: #1 total tags in treatment: 14126459 INFO @ Sun, 21 Jun 2020 21:42:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:42:19: #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 21:42:19: #1 tags after filtering in treatment: 14126373 INFO @ Sun, 21 Jun 2020 21:42:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:42:19: #1 finished! INFO @ Sun, 21 Jun 2020 21:42:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:42:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:42:20: #2 number of paired peaks: 5686 INFO @ Sun, 21 Jun 2020 21:42:20: start model_add_line... INFO @ Sun, 21 Jun 2020 21:42:21: start X-correlation... INFO @ Sun, 21 Jun 2020 21:42:21: end of X-cor INFO @ Sun, 21 Jun 2020 21:42:21: #2 finished! INFO @ Sun, 21 Jun 2020 21:42:21: #2 predicted fragment length is 246 bps INFO @ Sun, 21 Jun 2020 21:42:21: #2 alternative fragment length(s) may be 246 bps INFO @ Sun, 21 Jun 2020 21:42:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20_model.r INFO @ Sun, 21 Jun 2020 21:42:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:42:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:42:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:42:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:42:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:42:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.10_summits.bed INFO @ Sun, 21 Jun 2020 21:42:46: Done! pass1 - making usageList (607 chroms): 2 millis pass2 - checking and writing primary data (9067 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:43:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:43:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:43:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:43:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011043/SRX5011043.20_summits.bed INFO @ Sun, 21 Jun 2020 21:43:21: Done! pass1 - making usageList (442 chroms): 2 millis pass2 - checking and writing primary data (6650 records, 4 fields): 18 millis CompletedMACS2peakCalling