Job ID = 6457843 SRX = SRX4801807 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:58:19 prefetch.2.10.7: 1) Downloading 'SRR7968392'... 2020-06-21T11:58:19 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:01:47 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:01:47 prefetch.2.10.7: 1) 'SRR7968392' was downloaded successfully Read 21681801 spots for SRR7968392/SRR7968392.sra Written 21681801 spots for SRR7968392/SRR7968392.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: 00:07:45 21681801 reads; of these: 21681801 (100.00%) were unpaired; of these: 586303 (2.70%) aligned 0 times 14500657 (66.88%) aligned exactly 1 time 6594841 (30.42%) aligned >1 times 97.30% overall alignment rate Time searching: 00:07:45 Overall time: 00:07:45 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 12 files... [bam_rmdupse_core] 3001785 / 21095498 = 0.1423 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 21:16:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.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 21:16:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:16:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:03: 1000000 INFO @ Sun, 21 Jun 2020 21:17:10: 2000000 INFO @ Sun, 21 Jun 2020 21:17:17: 3000000 INFO @ Sun, 21 Jun 2020 21:17:24: 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 21:17:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.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 21:17:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:17:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:31: 5000000 INFO @ Sun, 21 Jun 2020 21:17:34: 1000000 INFO @ Sun, 21 Jun 2020 21:17:39: 6000000 INFO @ Sun, 21 Jun 2020 21:17:42: 2000000 INFO @ Sun, 21 Jun 2020 21:17:47: 7000000 INFO @ Sun, 21 Jun 2020 21:17:50: 3000000 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 21:17:55: 8000000 INFO @ Sun, 21 Jun 2020 21:17:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.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 21:17:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:17:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:17:58: 4000000 INFO @ Sun, 21 Jun 2020 21:18:04: 9000000 INFO @ Sun, 21 Jun 2020 21:18:06: 1000000 INFO @ Sun, 21 Jun 2020 21:18:07: 5000000 INFO @ Sun, 21 Jun 2020 21:18:13: 10000000 INFO @ Sun, 21 Jun 2020 21:18:16: 6000000 INFO @ Sun, 21 Jun 2020 21:18:16: 2000000 INFO @ Sun, 21 Jun 2020 21:18:22: 11000000 INFO @ Sun, 21 Jun 2020 21:18:25: 7000000 INFO @ Sun, 21 Jun 2020 21:18:26: 3000000 INFO @ Sun, 21 Jun 2020 21:18:32: 12000000 INFO @ Sun, 21 Jun 2020 21:18:34: 8000000 INFO @ Sun, 21 Jun 2020 21:18:36: 4000000 INFO @ Sun, 21 Jun 2020 21:18:41: 13000000 INFO @ Sun, 21 Jun 2020 21:18:43: 9000000 INFO @ Sun, 21 Jun 2020 21:18:46: 5000000 INFO @ Sun, 21 Jun 2020 21:18:50: 14000000 INFO @ Sun, 21 Jun 2020 21:18:52: 10000000 INFO @ Sun, 21 Jun 2020 21:18:57: 6000000 INFO @ Sun, 21 Jun 2020 21:18:59: 15000000 INFO @ Sun, 21 Jun 2020 21:19:02: 11000000 INFO @ Sun, 21 Jun 2020 21:19:07: 7000000 INFO @ Sun, 21 Jun 2020 21:19:09: 16000000 INFO @ Sun, 21 Jun 2020 21:19:11: 12000000 INFO @ Sun, 21 Jun 2020 21:19:17: 8000000 INFO @ Sun, 21 Jun 2020 21:19:18: 17000000 INFO @ Sun, 21 Jun 2020 21:19:20: 13000000 INFO @ Sun, 21 Jun 2020 21:19:26: 9000000 INFO @ Sun, 21 Jun 2020 21:19:27: 18000000 INFO @ Sun, 21 Jun 2020 21:19:28: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:19:28: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:19:28: #1 total tags in treatment: 18093713 INFO @ Sun, 21 Jun 2020 21:19:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:19:28: #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 21:19:29: #1 tags after filtering in treatment: 18093623 INFO @ Sun, 21 Jun 2020 21:19:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:19:29: #1 finished! INFO @ Sun, 21 Jun 2020 21:19:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:19:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:19:29: 14000000 INFO @ Sun, 21 Jun 2020 21:19:30: #2 number of paired peaks: 1561 INFO @ Sun, 21 Jun 2020 21:19:30: start model_add_line... INFO @ Sun, 21 Jun 2020 21:19:30: start X-correlation... INFO @ Sun, 21 Jun 2020 21:19:30: end of X-cor INFO @ Sun, 21 Jun 2020 21:19:30: #2 finished! INFO @ Sun, 21 Jun 2020 21:19:30: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:19:30: #2 alternative fragment length(s) may be 4,140 bps INFO @ Sun, 21 Jun 2020 21:19:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05_model.r INFO @ Sun, 21 Jun 2020 21:19:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:19:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:19:36: 10000000 INFO @ Sun, 21 Jun 2020 21:19:38: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:19:45: 11000000 INFO @ Sun, 21 Jun 2020 21:19:47: 16000000 INFO @ Sun, 21 Jun 2020 21:19:55: 12000000 INFO @ Sun, 21 Jun 2020 21:19:56: 17000000 INFO @ Sun, 21 Jun 2020 21:20:04: 13000000 INFO @ Sun, 21 Jun 2020 21:20:05: 18000000 INFO @ Sun, 21 Jun 2020 21:20:06: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:20:06: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:20:06: #1 total tags in treatment: 18093713 INFO @ Sun, 21 Jun 2020 21:20:06: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:20:06: #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 21:20:07: #1 tags after filtering in treatment: 18093623 INFO @ Sun, 21 Jun 2020 21:20:07: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:20:07: #1 finished! INFO @ Sun, 21 Jun 2020 21:20:07: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:20:07: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:20:08: #2 number of paired peaks: 1561 INFO @ Sun, 21 Jun 2020 21:20:08: start model_add_line... INFO @ Sun, 21 Jun 2020 21:20:08: start X-correlation... INFO @ Sun, 21 Jun 2020 21:20:08: end of X-cor INFO @ Sun, 21 Jun 2020 21:20:08: #2 finished! INFO @ Sun, 21 Jun 2020 21:20:08: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:20:08: #2 alternative fragment length(s) may be 4,140 bps INFO @ Sun, 21 Jun 2020 21:20:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10_model.r INFO @ Sun, 21 Jun 2020 21:20:08: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:20:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:20:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:20:13: 14000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:20:21: 15000000 INFO @ Sun, 21 Jun 2020 21:20:29: 16000000 INFO @ Sun, 21 Jun 2020 21:20:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:20:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:20:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.05_summits.bed INFO @ Sun, 21 Jun 2020 21:20:31: Done! pass1 - making usageList (626 chroms): 2 millis pass2 - checking and writing primary data (3761 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:20:38: 17000000 INFO @ Sun, 21 Jun 2020 21:20:46: 18000000 INFO @ Sun, 21 Jun 2020 21:20:46: #1 tag size is determined as 68 bps INFO @ Sun, 21 Jun 2020 21:20:46: #1 tag size = 68 INFO @ Sun, 21 Jun 2020 21:20:46: #1 total tags in treatment: 18093713 INFO @ Sun, 21 Jun 2020 21:20:46: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:20:46: #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 21:20:47: #1 tags after filtering in treatment: 18093623 INFO @ Sun, 21 Jun 2020 21:20:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:20:47: #1 finished! INFO @ Sun, 21 Jun 2020 21:20:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:20:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:20:48: #2 number of paired peaks: 1561 INFO @ Sun, 21 Jun 2020 21:20:48: start model_add_line... INFO @ Sun, 21 Jun 2020 21:20:48: start X-correlation... INFO @ Sun, 21 Jun 2020 21:20:48: end of X-cor INFO @ Sun, 21 Jun 2020 21:20:48: #2 finished! INFO @ Sun, 21 Jun 2020 21:20:48: #2 predicted fragment length is 140 bps INFO @ Sun, 21 Jun 2020 21:20:48: #2 alternative fragment length(s) may be 4,140 bps INFO @ Sun, 21 Jun 2020 21:20:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20_model.r INFO @ Sun, 21 Jun 2020 21:20:49: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:20:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:20:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:21:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:21:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:21:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.10_summits.bed INFO @ Sun, 21 Jun 2020 21:21:07: Done! pass1 - making usageList (549 chroms): 1 millis pass2 - checking and writing primary data (2667 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:21:29: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:21:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:21:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:21:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4801807/SRX4801807.20_summits.bed INFO @ Sun, 21 Jun 2020 21:21:47: Done! pass1 - making usageList (475 chroms): 1 millis pass2 - checking and writing primary data (1792 records, 4 fields): 14 millis CompletedMACS2peakCalling