Job ID = 6458248 SRX = SRX5011015 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:24:07 prefetch.2.10.7: 1) Downloading 'SRR8191464'... 2020-06-21T12:24:07 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:26:29 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:26:29 prefetch.2.10.7: 1) 'SRR8191464' was downloaded successfully 2020-06-21T12:26:29 prefetch.2.10.7: 'SRR8191464' has 0 unresolved dependencies Read 36208630 spots for SRR8191464/SRR8191464.sra Written 36208630 spots for SRR8191464/SRR8191464.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 36208630 reads; of these: 36208630 (100.00%) were unpaired; of these: 4684014 (12.94%) aligned 0 times 23801909 (65.74%) aligned exactly 1 time 7722707 (21.33%) aligned >1 times 87.06% 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] 18237236 / 31524616 = 0.5785 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 21:42:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.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 21:42:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:42:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:42:08: 1000000 INFO @ Sun, 21 Jun 2020 21:42:14: 2000000 INFO @ Sun, 21 Jun 2020 21:42:19: 3000000 INFO @ Sun, 21 Jun 2020 21:42:25: 4000000 INFO @ Sun, 21 Jun 2020 21:42:30: 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 21:42:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.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 21:42:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:42:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:42:36: 6000000 INFO @ Sun, 21 Jun 2020 21:42:38: 1000000 INFO @ Sun, 21 Jun 2020 21:42:42: 7000000 INFO @ Sun, 21 Jun 2020 21:42:44: 2000000 INFO @ Sun, 21 Jun 2020 21:42:47: 8000000 INFO @ Sun, 21 Jun 2020 21:42:50: 3000000 INFO @ Sun, 21 Jun 2020 21:42:53: 9000000 INFO @ Sun, 21 Jun 2020 21:42:56: 4000000 INFO @ Sun, 21 Jun 2020 21:42:59: 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 21:43:02: 5000000 INFO @ Sun, 21 Jun 2020 21:43:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.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 21:43:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:43:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:43:05: 11000000 INFO @ Sun, 21 Jun 2020 21:43:08: 6000000 INFO @ Sun, 21 Jun 2020 21:43:09: 1000000 INFO @ Sun, 21 Jun 2020 21:43:12: 12000000 INFO @ Sun, 21 Jun 2020 21:43:14: 7000000 INFO @ Sun, 21 Jun 2020 21:43:15: 2000000 INFO @ Sun, 21 Jun 2020 21:43:18: 13000000 INFO @ Sun, 21 Jun 2020 21:43:20: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:43:20: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:43:20: #1 total tags in treatment: 13287380 INFO @ Sun, 21 Jun 2020 21:43:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:43:20: #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 21:43:20: #1 tags after filtering in treatment: 13287316 INFO @ Sun, 21 Jun 2020 21:43:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:43:20: #1 finished! INFO @ Sun, 21 Jun 2020 21:43:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:43:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:43:20: 8000000 INFO @ Sun, 21 Jun 2020 21:43:21: 3000000 INFO @ Sun, 21 Jun 2020 21:43:21: #2 number of paired peaks: 2369 INFO @ Sun, 21 Jun 2020 21:43:21: start model_add_line... INFO @ Sun, 21 Jun 2020 21:43:21: start X-correlation... INFO @ Sun, 21 Jun 2020 21:43:21: end of X-cor INFO @ Sun, 21 Jun 2020 21:43:21: #2 finished! INFO @ Sun, 21 Jun 2020 21:43:21: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:43:21: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:43:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05_model.r INFO @ Sun, 21 Jun 2020 21:43:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:43:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:43:26: 9000000 INFO @ Sun, 21 Jun 2020 21:43:27: 4000000 INFO @ Sun, 21 Jun 2020 21:43:33: 10000000 INFO @ Sun, 21 Jun 2020 21:43:33: 5000000 INFO @ Sun, 21 Jun 2020 21:43:39: 6000000 INFO @ Sun, 21 Jun 2020 21:43:39: 11000000 INFO @ Sun, 21 Jun 2020 21:43:45: 7000000 INFO @ Sun, 21 Jun 2020 21:43:45: 12000000 INFO @ Sun, 21 Jun 2020 21:43:51: 8000000 INFO @ Sun, 21 Jun 2020 21:43:52: 13000000 INFO @ Sun, 21 Jun 2020 21:43:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:43:53: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:43:53: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:43:53: #1 total tags in treatment: 13287380 INFO @ Sun, 21 Jun 2020 21:43:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:43:53: #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 21:43:54: #1 tags after filtering in treatment: 13287316 INFO @ Sun, 21 Jun 2020 21:43:54: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:43:54: #1 finished! INFO @ Sun, 21 Jun 2020 21:43:54: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:43:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:43:55: #2 number of paired peaks: 2369 INFO @ Sun, 21 Jun 2020 21:43:55: start model_add_line... INFO @ Sun, 21 Jun 2020 21:43:55: start X-correlation... INFO @ Sun, 21 Jun 2020 21:43:55: end of X-cor INFO @ Sun, 21 Jun 2020 21:43:55: #2 finished! INFO @ Sun, 21 Jun 2020 21:43:55: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:43:55: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:43:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10_model.r INFO @ Sun, 21 Jun 2020 21:43:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:43:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:43:57: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:44:03: 10000000 INFO @ Sun, 21 Jun 2020 21:44:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:44:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:44:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.05_summits.bed INFO @ Sun, 21 Jun 2020 21:44:08: Done! INFO @ Sun, 21 Jun 2020 21:44:08: 11000000 pass1 - making usageList (786 chroms): 3 millis pass2 - checking and writing primary data (8324 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:44:14: 12000000 INFO @ Sun, 21 Jun 2020 21:44:20: 13000000 INFO @ Sun, 21 Jun 2020 21:44:21: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:44:21: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:44:21: #1 total tags in treatment: 13287380 INFO @ Sun, 21 Jun 2020 21:44:21: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:44:21: #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 21:44:22: #1 tags after filtering in treatment: 13287316 INFO @ Sun, 21 Jun 2020 21:44:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:44:22: #1 finished! INFO @ Sun, 21 Jun 2020 21:44:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:44:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:44:23: #2 number of paired peaks: 2369 INFO @ Sun, 21 Jun 2020 21:44:23: start model_add_line... INFO @ Sun, 21 Jun 2020 21:44:23: start X-correlation... INFO @ Sun, 21 Jun 2020 21:44:23: end of X-cor INFO @ Sun, 21 Jun 2020 21:44:23: #2 finished! INFO @ Sun, 21 Jun 2020 21:44:23: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:44:23: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:44:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20_model.r INFO @ Sun, 21 Jun 2020 21:44:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:44:23: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:44:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:44:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:44:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:44:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.10_summits.bed INFO @ Sun, 21 Jun 2020 21:44:41: Done! pass1 - making usageList (724 chroms): 2 millis pass2 - checking and writing primary data (5295 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:44:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:45:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:45:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:45:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011015/SRX5011015.20_summits.bed INFO @ Sun, 21 Jun 2020 21:45:08: Done! pass1 - making usageList (596 chroms): 1 millis pass2 - checking and writing primary data (2801 records, 4 fields): 18 millis CompletedMACS2peakCalling