Job ID = 6456171 SRX = SRX3279760 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:42:23 prefetch.2.10.7: 1) Downloading 'SRR6168910'... 2020-06-21T10:42:23 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:47:30 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:47:30 prefetch.2.10.7: 1) 'SRR6168910' was downloaded successfully 2020-06-21T10:47:30 prefetch.2.10.7: 'SRR6168910' has 0 unresolved dependencies Read 35881276 spots for SRR6168910/SRR6168910.sra Written 35881276 spots for SRR6168910/SRR6168910.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: 00:12:31 35881276 reads; of these: 35881276 (100.00%) were unpaired; of these: 901995 (2.51%) aligned 0 times 30296066 (84.43%) aligned exactly 1 time 4683215 (13.05%) aligned >1 times 97.49% overall alignment rate Time searching: 00:12:31 Overall time: 00:12:31 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] 14662226 / 34979281 = 0.4192 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 20:13:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.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 20:13:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:13:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:13:24: 1000000 INFO @ Sun, 21 Jun 2020 20:13:30: 2000000 INFO @ Sun, 21 Jun 2020 20:13:35: 3000000 INFO @ Sun, 21 Jun 2020 20:13:41: 4000000 INFO @ Sun, 21 Jun 2020 20:13:46: 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 20:13:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.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 20:13:49: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:13:49: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:13:52: 6000000 INFO @ Sun, 21 Jun 2020 20:13:55: 1000000 INFO @ Sun, 21 Jun 2020 20:13:58: 7000000 INFO @ Sun, 21 Jun 2020 20:14:02: 2000000 INFO @ Sun, 21 Jun 2020 20:14:04: 8000000 INFO @ Sun, 21 Jun 2020 20:14:09: 3000000 INFO @ Sun, 21 Jun 2020 20:14:10: 9000000 INFO @ Sun, 21 Jun 2020 20:14:16: 4000000 INFO @ Sun, 21 Jun 2020 20:14:16: 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 20:14:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.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 20:14:19: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:14:19: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:14:22: 5000000 INFO @ Sun, 21 Jun 2020 20:14:23: 11000000 INFO @ Sun, 21 Jun 2020 20:14:25: 1000000 INFO @ Sun, 21 Jun 2020 20:14:29: 12000000 INFO @ Sun, 21 Jun 2020 20:14:29: 6000000 INFO @ Sun, 21 Jun 2020 20:14:32: 2000000 INFO @ Sun, 21 Jun 2020 20:14:35: 13000000 INFO @ Sun, 21 Jun 2020 20:14:36: 7000000 INFO @ Sun, 21 Jun 2020 20:14:39: 3000000 INFO @ Sun, 21 Jun 2020 20:14:41: 14000000 INFO @ Sun, 21 Jun 2020 20:14:43: 8000000 INFO @ Sun, 21 Jun 2020 20:14:46: 4000000 INFO @ Sun, 21 Jun 2020 20:14:47: 15000000 INFO @ Sun, 21 Jun 2020 20:14:50: 9000000 INFO @ Sun, 21 Jun 2020 20:14:52: 5000000 INFO @ Sun, 21 Jun 2020 20:14:53: 16000000 INFO @ Sun, 21 Jun 2020 20:14:57: 10000000 INFO @ Sun, 21 Jun 2020 20:14:59: 6000000 INFO @ Sun, 21 Jun 2020 20:15:00: 17000000 INFO @ Sun, 21 Jun 2020 20:15:04: 11000000 INFO @ Sun, 21 Jun 2020 20:15:06: 18000000 INFO @ Sun, 21 Jun 2020 20:15:06: 7000000 INFO @ Sun, 21 Jun 2020 20:15:11: 12000000 INFO @ Sun, 21 Jun 2020 20:15:12: 19000000 INFO @ Sun, 21 Jun 2020 20:15:13: 8000000 INFO @ Sun, 21 Jun 2020 20:15:18: 13000000 INFO @ Sun, 21 Jun 2020 20:15:18: 20000000 INFO @ Sun, 21 Jun 2020 20:15:20: #1 tag size is determined as 79 bps INFO @ Sun, 21 Jun 2020 20:15:20: #1 tag size = 79 INFO @ Sun, 21 Jun 2020 20:15:20: #1 total tags in treatment: 20317055 INFO @ Sun, 21 Jun 2020 20:15:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:15:20: #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 20:15:20: 9000000 INFO @ Sun, 21 Jun 2020 20:15:21: #1 tags after filtering in treatment: 20316911 INFO @ Sun, 21 Jun 2020 20:15:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:15:21: #1 finished! INFO @ Sun, 21 Jun 2020 20:15:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:15:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:15:22: #2 number of paired peaks: 4033 INFO @ Sun, 21 Jun 2020 20:15:22: start model_add_line... INFO @ Sun, 21 Jun 2020 20:15:23: start X-correlation... INFO @ Sun, 21 Jun 2020 20:15:23: end of X-cor INFO @ Sun, 21 Jun 2020 20:15:23: #2 finished! INFO @ Sun, 21 Jun 2020 20:15:23: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 20:15:23: #2 alternative fragment length(s) may be 190 bps INFO @ Sun, 21 Jun 2020 20:15:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05_model.r INFO @ Sun, 21 Jun 2020 20:15:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:15:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:15:25: 14000000 INFO @ Sun, 21 Jun 2020 20:15:27: 10000000 INFO @ Sun, 21 Jun 2020 20:15:31: 15000000 INFO @ Sun, 21 Jun 2020 20:15:34: 11000000 INFO @ Sun, 21 Jun 2020 20:15:38: 16000000 INFO @ Sun, 21 Jun 2020 20:15:42: 12000000 INFO @ Sun, 21 Jun 2020 20:15:46: 17000000 INFO @ Sun, 21 Jun 2020 20:15:49: 13000000 INFO @ Sun, 21 Jun 2020 20:15:53: 18000000 INFO @ Sun, 21 Jun 2020 20:15:56: 14000000 INFO @ Sun, 21 Jun 2020 20:16:00: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:16:03: 15000000 INFO @ Sun, 21 Jun 2020 20:16:07: 20000000 INFO @ Sun, 21 Jun 2020 20:16:09: #1 tag size is determined as 79 bps INFO @ Sun, 21 Jun 2020 20:16:09: #1 tag size = 79 INFO @ Sun, 21 Jun 2020 20:16:09: #1 total tags in treatment: 20317055 INFO @ Sun, 21 Jun 2020 20:16:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:16:09: #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 20:16:10: #1 tags after filtering in treatment: 20316911 INFO @ Sun, 21 Jun 2020 20:16:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:16:10: #1 finished! INFO @ Sun, 21 Jun 2020 20:16:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:16:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:16:10: 16000000 INFO @ Sun, 21 Jun 2020 20:16:12: #2 number of paired peaks: 4033 INFO @ Sun, 21 Jun 2020 20:16:12: start model_add_line... INFO @ Sun, 21 Jun 2020 20:16:12: start X-correlation... INFO @ Sun, 21 Jun 2020 20:16:12: end of X-cor INFO @ Sun, 21 Jun 2020 20:16:12: #2 finished! INFO @ Sun, 21 Jun 2020 20:16:12: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 20:16:12: #2 alternative fragment length(s) may be 190 bps INFO @ Sun, 21 Jun 2020 20:16:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10_model.r INFO @ Sun, 21 Jun 2020 20:16:12: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:16:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:16:17: 17000000 INFO @ Sun, 21 Jun 2020 20:16:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:16:24: 18000000 INFO @ Sun, 21 Jun 2020 20:16:31: 19000000 INFO @ Sun, 21 Jun 2020 20:16:37: 20000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:16:40: #1 tag size is determined as 79 bps INFO @ Sun, 21 Jun 2020 20:16:40: #1 tag size = 79 INFO @ Sun, 21 Jun 2020 20:16:40: #1 total tags in treatment: 20317055 INFO @ Sun, 21 Jun 2020 20:16:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:16:40: #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 20:16:40: #1 tags after filtering in treatment: 20316911 INFO @ Sun, 21 Jun 2020 20:16:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:16:40: #1 finished! INFO @ Sun, 21 Jun 2020 20:16:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:16:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:16:42: #2 number of paired peaks: 4033 INFO @ Sun, 21 Jun 2020 20:16:42: start model_add_line... INFO @ Sun, 21 Jun 2020 20:16:42: start X-correlation... INFO @ Sun, 21 Jun 2020 20:16:42: end of X-cor INFO @ Sun, 21 Jun 2020 20:16:42: #2 finished! INFO @ Sun, 21 Jun 2020 20:16:42: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 20:16:42: #2 alternative fragment length(s) may be 190 bps INFO @ Sun, 21 Jun 2020 20:16:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20_model.r INFO @ Sun, 21 Jun 2020 20:16:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:16:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:16:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:16:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:16:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.05_summits.bed INFO @ Sun, 21 Jun 2020 20:16:43: Done! pass1 - making usageList (395 chroms): 2 millis pass2 - checking and writing primary data (8884 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:17:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:17:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:17:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:17:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.10_summits.bed INFO @ Sun, 21 Jun 2020 20:17:30: Done! pass1 - making usageList (312 chroms): 2 millis pass2 - checking and writing primary data (7848 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:17:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:18:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:18:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:18:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3279760/SRX3279760.20_summits.bed INFO @ Sun, 21 Jun 2020 20:18:01: Done! pass1 - making usageList (169 chroms): 2 millis pass2 - checking and writing primary data (6581 records, 4 fields): 14 millis CompletedMACS2peakCalling