Job ID = 6458292 SRX = SRX5011049 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:23:49 prefetch.2.10.7: 1) Downloading 'SRR8191498'... 2020-06-21T12:23:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:26:28 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:26:28 prefetch.2.10.7: 1) 'SRR8191498' was downloaded successfully 2020-06-21T12:26:28 prefetch.2.10.7: 'SRR8191498' has 0 unresolved dependencies Read 32379953 spots for SRR8191498/SRR8191498.sra Written 32379953 spots for SRR8191498/SRR8191498.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: 00:07:36 32379953 reads; of these: 32379953 (100.00%) were unpaired; of these: 5130537 (15.84%) aligned 0 times 20546335 (63.45%) aligned exactly 1 time 6703081 (20.70%) aligned >1 times 84.16% overall alignment rate Time searching: 00:07:37 Overall time: 00:07:37 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] 15198617 / 27249416 = 0.5578 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 21:39:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.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 21:39:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:39:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:39:55: 1000000 INFO @ Sun, 21 Jun 2020 21:40:00: 2000000 INFO @ Sun, 21 Jun 2020 21:40:05: 3000000 INFO @ Sun, 21 Jun 2020 21:40:09: 4000000 INFO @ Sun, 21 Jun 2020 21:40:14: 5000000 INFO @ Sun, 21 Jun 2020 21:40:19: 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 21:40:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.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 21:40:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:23: 7000000 INFO @ Sun, 21 Jun 2020 21:40:25: 1000000 INFO @ Sun, 21 Jun 2020 21:40:28: 8000000 INFO @ Sun, 21 Jun 2020 21:40:30: 2000000 INFO @ Sun, 21 Jun 2020 21:40:33: 9000000 INFO @ Sun, 21 Jun 2020 21:40:35: 3000000 INFO @ Sun, 21 Jun 2020 21:40:38: 10000000 INFO @ Sun, 21 Jun 2020 21:40:40: 4000000 INFO @ Sun, 21 Jun 2020 21:40:43: 11000000 INFO @ Sun, 21 Jun 2020 21:40:44: 5000000 INFO @ Sun, 21 Jun 2020 21:40:48: 12000000 INFO @ Sun, 21 Jun 2020 21:40:48: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:40:48: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:40:48: #1 total tags in treatment: 12050799 INFO @ Sun, 21 Jun 2020 21:40:48: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:40:48: #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 21:40:49: #1 tags after filtering in treatment: 12050738 INFO @ Sun, 21 Jun 2020 21:40:49: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:40:49: #1 finished! INFO @ Sun, 21 Jun 2020 21:40:49: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:40:49: #2 looking for paired plus/minus strand peaks... 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 21:40:49: 6000000 INFO @ Sun, 21 Jun 2020 21:40:50: #2 number of paired peaks: 2878 INFO @ Sun, 21 Jun 2020 21:40:50: start model_add_line... INFO @ Sun, 21 Jun 2020 21:40:50: start X-correlation... INFO @ Sun, 21 Jun 2020 21:40:50: end of X-cor INFO @ Sun, 21 Jun 2020 21:40:50: #2 finished! INFO @ Sun, 21 Jun 2020 21:40:50: #2 predicted fragment length is 166 bps INFO @ Sun, 21 Jun 2020 21:40:50: #2 alternative fragment length(s) may be 166 bps INFO @ Sun, 21 Jun 2020 21:40:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05_model.r INFO @ Sun, 21 Jun 2020 21:40:50: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:40:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:40:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.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 21:40:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:40:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:40:54: 7000000 INFO @ Sun, 21 Jun 2020 21:40:56: 1000000 INFO @ Sun, 21 Jun 2020 21:40:59: 8000000 INFO @ Sun, 21 Jun 2020 21:41:00: 2000000 INFO @ Sun, 21 Jun 2020 21:41:04: 9000000 INFO @ Sun, 21 Jun 2020 21:41:05: 3000000 INFO @ Sun, 21 Jun 2020 21:41:09: 10000000 INFO @ Sun, 21 Jun 2020 21:41:10: 4000000 INFO @ Sun, 21 Jun 2020 21:41:14: 11000000 INFO @ Sun, 21 Jun 2020 21:41:16: 5000000 INFO @ Sun, 21 Jun 2020 21:41:18: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:19: 12000000 INFO @ Sun, 21 Jun 2020 21:41:19: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:41:19: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:41:19: #1 total tags in treatment: 12050799 INFO @ Sun, 21 Jun 2020 21:41:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:41:19: #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 21:41:20: #1 tags after filtering in treatment: 12050738 INFO @ Sun, 21 Jun 2020 21:41:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:41:20: #1 finished! INFO @ Sun, 21 Jun 2020 21:41:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:41:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:41:21: #2 number of paired peaks: 2878 INFO @ Sun, 21 Jun 2020 21:41:21: start model_add_line... INFO @ Sun, 21 Jun 2020 21:41:21: start X-correlation... INFO @ Sun, 21 Jun 2020 21:41:21: end of X-cor INFO @ Sun, 21 Jun 2020 21:41:21: #2 finished! INFO @ Sun, 21 Jun 2020 21:41:21: #2 predicted fragment length is 166 bps INFO @ Sun, 21 Jun 2020 21:41:21: #2 alternative fragment length(s) may be 166 bps INFO @ Sun, 21 Jun 2020 21:41:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10_model.r INFO @ Sun, 21 Jun 2020 21:41:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:41:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:41:21: 6000000 INFO @ Sun, 21 Jun 2020 21:41:26: 7000000 INFO @ Sun, 21 Jun 2020 21:41:31: 8000000 INFO @ Sun, 21 Jun 2020 21:41:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:41:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:41:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.05_summits.bed INFO @ Sun, 21 Jun 2020 21:41:32: Done! pass1 - making usageList (766 chroms): 2 millis pass2 - checking and writing primary data (6736 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:41:36: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:41:42: 10000000 INFO @ Sun, 21 Jun 2020 21:41:47: 11000000 INFO @ Sun, 21 Jun 2020 21:41:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:41:53: 12000000 INFO @ Sun, 21 Jun 2020 21:41:53: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:41:53: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:41:53: #1 total tags in treatment: 12050799 INFO @ Sun, 21 Jun 2020 21:41:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:41:53: #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 21:41:54: #1 tags after filtering in treatment: 12050738 INFO @ Sun, 21 Jun 2020 21:41:54: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:41:54: #1 finished! INFO @ Sun, 21 Jun 2020 21:41:54: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:41:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:41:55: #2 number of paired peaks: 2878 INFO @ Sun, 21 Jun 2020 21:41:55: start model_add_line... INFO @ Sun, 21 Jun 2020 21:41:55: start X-correlation... INFO @ Sun, 21 Jun 2020 21:41:55: end of X-cor INFO @ Sun, 21 Jun 2020 21:41:55: #2 finished! INFO @ Sun, 21 Jun 2020 21:41:55: #2 predicted fragment length is 166 bps INFO @ Sun, 21 Jun 2020 21:41:55: #2 alternative fragment length(s) may be 166 bps INFO @ Sun, 21 Jun 2020 21:41:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20_model.r INFO @ Sun, 21 Jun 2020 21:41:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:41:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:42:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:42:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:42:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.10_summits.bed INFO @ Sun, 21 Jun 2020 21:42:03: Done! pass1 - making usageList (698 chroms): 1 millis pass2 - checking and writing primary data (4630 records, 4 fields): 22 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:42:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:42:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:42:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:42:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011049/SRX5011049.20_summits.bed INFO @ Sun, 21 Jun 2020 21:42:37: Done! pass1 - making usageList (566 chroms): 1 millis pass2 - checking and writing primary data (2814 records, 4 fields): 17 millis CompletedMACS2peakCalling