Job ID = 6456175 SRX = SRX3279764 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:39:53 prefetch.2.10.7: 1) Downloading 'SRR6168914'... 2020-06-21T10:39:53 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:46:56 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:46:56 prefetch.2.10.7: 1) 'SRR6168914' was downloaded successfully 2020-06-21T10:46:56 prefetch.2.10.7: 'SRR6168914' has 0 unresolved dependencies Read 42624200 spots for SRR6168914/SRR6168914.sra Written 42624200 spots for SRR6168914/SRR6168914.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: 00:09:08 42624200 reads; of these: 42624200 (100.00%) were unpaired; of these: 4514255 (10.59%) aligned 0 times 36305629 (85.18%) aligned exactly 1 time 1804316 (4.23%) aligned >1 times 89.41% overall alignment rate Time searching: 00:09:08 Overall time: 00:09:08 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] 19330542 / 38109945 = 0.5072 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 20:07:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.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 20:07:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:07:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:07:47: 1000000 INFO @ Sun, 21 Jun 2020 20:07:52: 2000000 INFO @ Sun, 21 Jun 2020 20:07:57: 3000000 INFO @ Sun, 21 Jun 2020 20:08:02: 4000000 INFO @ Sun, 21 Jun 2020 20:08:07: 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 20:08:12: 6000000 INFO @ Sun, 21 Jun 2020 20:08:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.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 20:08:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:08:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:08:17: 7000000 INFO @ Sun, 21 Jun 2020 20:08:17: 1000000 INFO @ Sun, 21 Jun 2020 20:08:22: 8000000 INFO @ Sun, 21 Jun 2020 20:08:22: 2000000 INFO @ Sun, 21 Jun 2020 20:08:27: 9000000 INFO @ Sun, 21 Jun 2020 20:08:27: 3000000 INFO @ Sun, 21 Jun 2020 20:08:32: 10000000 INFO @ Sun, 21 Jun 2020 20:08:32: 4000000 INFO @ Sun, 21 Jun 2020 20:08:37: 11000000 INFO @ Sun, 21 Jun 2020 20:08:37: 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 20:08:42: 12000000 INFO @ Sun, 21 Jun 2020 20:08:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.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 20:08:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:08:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:08:42: 6000000 INFO @ Sun, 21 Jun 2020 20:08:47: 13000000 INFO @ Sun, 21 Jun 2020 20:08:47: 7000000 INFO @ Sun, 21 Jun 2020 20:08:47: 1000000 INFO @ Sun, 21 Jun 2020 20:08:52: 14000000 INFO @ Sun, 21 Jun 2020 20:08:52: 8000000 INFO @ Sun, 21 Jun 2020 20:08:53: 2000000 INFO @ Sun, 21 Jun 2020 20:08:57: 15000000 INFO @ Sun, 21 Jun 2020 20:08:57: 9000000 INFO @ Sun, 21 Jun 2020 20:08:58: 3000000 INFO @ Sun, 21 Jun 2020 20:09:02: 10000000 INFO @ Sun, 21 Jun 2020 20:09:03: 4000000 INFO @ Sun, 21 Jun 2020 20:09:03: 16000000 INFO @ Sun, 21 Jun 2020 20:09:08: 5000000 INFO @ Sun, 21 Jun 2020 20:09:08: 11000000 INFO @ Sun, 21 Jun 2020 20:09:08: 17000000 INFO @ Sun, 21 Jun 2020 20:09:13: 6000000 INFO @ Sun, 21 Jun 2020 20:09:13: 18000000 INFO @ Sun, 21 Jun 2020 20:09:13: 12000000 INFO @ Sun, 21 Jun 2020 20:09:17: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:09:17: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:09:17: #1 total tags in treatment: 18779403 INFO @ Sun, 21 Jun 2020 20:09:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:09:17: #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 20:09:18: 7000000 INFO @ Sun, 21 Jun 2020 20:09:18: #1 tags after filtering in treatment: 18779143 INFO @ Sun, 21 Jun 2020 20:09:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:09:18: #1 finished! INFO @ Sun, 21 Jun 2020 20:09:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:09:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:09:18: 13000000 INFO @ Sun, 21 Jun 2020 20:09:21: #2 number of paired peaks: 16882 INFO @ Sun, 21 Jun 2020 20:09:21: start model_add_line... INFO @ Sun, 21 Jun 2020 20:09:21: start X-correlation... INFO @ Sun, 21 Jun 2020 20:09:21: end of X-cor INFO @ Sun, 21 Jun 2020 20:09:21: #2 finished! INFO @ Sun, 21 Jun 2020 20:09:21: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 20:09:21: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 20:09:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05_model.r INFO @ Sun, 21 Jun 2020 20:09:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:09:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:09:23: 8000000 INFO @ Sun, 21 Jun 2020 20:09:23: 14000000 INFO @ Sun, 21 Jun 2020 20:09:28: 9000000 INFO @ Sun, 21 Jun 2020 20:09:28: 15000000 INFO @ Sun, 21 Jun 2020 20:09:33: 10000000 INFO @ Sun, 21 Jun 2020 20:09:34: 16000000 INFO @ Sun, 21 Jun 2020 20:09:38: 11000000 INFO @ Sun, 21 Jun 2020 20:09:39: 17000000 INFO @ Sun, 21 Jun 2020 20:09:43: 12000000 INFO @ Sun, 21 Jun 2020 20:09:44: 18000000 INFO @ Sun, 21 Jun 2020 20:09:48: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:09:48: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:09:48: #1 total tags in treatment: 18779403 INFO @ Sun, 21 Jun 2020 20:09:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:09:48: #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 20:09:49: 13000000 INFO @ Sun, 21 Jun 2020 20:09:49: #1 tags after filtering in treatment: 18779143 INFO @ Sun, 21 Jun 2020 20:09:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:09:49: #1 finished! INFO @ Sun, 21 Jun 2020 20:09:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:09:49: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:09:52: #2 number of paired peaks: 16882 INFO @ Sun, 21 Jun 2020 20:09:52: start model_add_line... INFO @ Sun, 21 Jun 2020 20:09:52: start X-correlation... INFO @ Sun, 21 Jun 2020 20:09:52: end of X-cor INFO @ Sun, 21 Jun 2020 20:09:52: #2 finished! INFO @ Sun, 21 Jun 2020 20:09:52: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 20:09:52: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 20:09:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10_model.r INFO @ Sun, 21 Jun 2020 20:09:52: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:09:52: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:09:54: 14000000 INFO @ Sun, 21 Jun 2020 20:09:59: 15000000 INFO @ Sun, 21 Jun 2020 20:10:05: 16000000 INFO @ Sun, 21 Jun 2020 20:10:10: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:10:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:10:15: 18000000 INFO @ Sun, 21 Jun 2020 20:10:19: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:10:19: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:10:19: #1 total tags in treatment: 18779403 INFO @ Sun, 21 Jun 2020 20:10:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:10:19: #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 20:10:20: #1 tags after filtering in treatment: 18779143 INFO @ Sun, 21 Jun 2020 20:10:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:10:20: #1 finished! INFO @ Sun, 21 Jun 2020 20:10:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:10:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:10:23: #2 number of paired peaks: 16882 INFO @ Sun, 21 Jun 2020 20:10:23: start model_add_line... INFO @ Sun, 21 Jun 2020 20:10:23: start X-correlation... INFO @ Sun, 21 Jun 2020 20:10:23: end of X-cor INFO @ Sun, 21 Jun 2020 20:10:23: #2 finished! INFO @ Sun, 21 Jun 2020 20:10:23: #2 predicted fragment length is 147 bps INFO @ Sun, 21 Jun 2020 20:10:23: #2 alternative fragment length(s) may be 147 bps INFO @ Sun, 21 Jun 2020 20:10:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20_model.r INFO @ Sun, 21 Jun 2020 20:10:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:10:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:10:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:10:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:10:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.05_summits.bed INFO @ Sun, 21 Jun 2020 20:10:33: Done! pass1 - making usageList (98 chroms): 2 millis pass2 - checking and writing primary data (8988 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:10:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:11:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:11:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:11:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.10_summits.bed INFO @ Sun, 21 Jun 2020 20:11:02: Done! pass1 - making usageList (77 chroms): 2 millis pass2 - checking and writing primary data (8462 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:11:14: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:11:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:11:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:11:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279764/SRX3279764.20_summits.bed INFO @ Sun, 21 Jun 2020 20:11:33: Done! pass1 - making usageList (44 chroms): 2 millis pass2 - checking and writing primary data (7727 records, 4 fields): 10 millis CompletedMACS2peakCalling