Job ID = 6458355 SRX = SRX5011096 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:19:04 prefetch.2.10.7: 1) Downloading 'SRR8191545'... 2020-06-21T12:19:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:21:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:21:17 prefetch.2.10.7: 'SRR8191545' is valid 2020-06-21T12:21:17 prefetch.2.10.7: 1) 'SRR8191545' was downloaded successfully 2020-06-21T12:21:17 prefetch.2.10.7: 'SRR8191545' has 0 unresolved dependencies Read 28385162 spots for SRR8191545/SRR8191545.sra Written 28385162 spots for SRR8191545/SRR8191545.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: 00:06:57 28385162 reads; of these: 28385162 (100.00%) were unpaired; of these: 3060417 (10.78%) aligned 0 times 20182085 (71.10%) aligned exactly 1 time 5142660 (18.12%) aligned >1 times 89.22% overall alignment rate Time searching: 00:06:57 Overall time: 00:06:57 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] 13401628 / 25324745 = 0.5292 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 21:33:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.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 21:33:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:33:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:33:37: 1000000 INFO @ Sun, 21 Jun 2020 21:33:45: 2000000 INFO @ Sun, 21 Jun 2020 21:33:52: 3000000 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 21:34:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.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 21:34:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:00: 4000000 INFO @ Sun, 21 Jun 2020 21:34:08: 1000000 INFO @ Sun, 21 Jun 2020 21:34:09: 5000000 INFO @ Sun, 21 Jun 2020 21:34:15: 2000000 INFO @ Sun, 21 Jun 2020 21:34:18: 6000000 INFO @ Sun, 21 Jun 2020 21:34:23: 3000000 INFO @ Sun, 21 Jun 2020 21:34:27: 7000000 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 21:34:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.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 21:34:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:31: 4000000 INFO @ Sun, 21 Jun 2020 21:34:36: 8000000 INFO @ Sun, 21 Jun 2020 21:34:39: 1000000 INFO @ Sun, 21 Jun 2020 21:34:39: 5000000 INFO @ Sun, 21 Jun 2020 21:34:45: 9000000 INFO @ Sun, 21 Jun 2020 21:34:47: 6000000 INFO @ Sun, 21 Jun 2020 21:34:48: 2000000 INFO @ Sun, 21 Jun 2020 21:34:55: 7000000 INFO @ Sun, 21 Jun 2020 21:34:55: 10000000 INFO @ Sun, 21 Jun 2020 21:34:57: 3000000 INFO @ Sun, 21 Jun 2020 21:35:03: 8000000 INFO @ Sun, 21 Jun 2020 21:35:04: 11000000 INFO @ Sun, 21 Jun 2020 21:35:06: 4000000 INFO @ Sun, 21 Jun 2020 21:35:10: 9000000 INFO @ Sun, 21 Jun 2020 21:35:13: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:35:13: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:35:13: #1 total tags in treatment: 11923117 INFO @ Sun, 21 Jun 2020 21:35:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:13: #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 21:35:13: #1 tags after filtering in treatment: 11922992 INFO @ Sun, 21 Jun 2020 21:35:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:13: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:14: 5000000 INFO @ Sun, 21 Jun 2020 21:35:15: #2 number of paired peaks: 8371 INFO @ Sun, 21 Jun 2020 21:35:15: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:15: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:15: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:15: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:15: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 21:35:15: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 21:35:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05_model.r INFO @ Sun, 21 Jun 2020 21:35:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:15: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:18: 10000000 INFO @ Sun, 21 Jun 2020 21:35:23: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:35:26: 11000000 INFO @ Sun, 21 Jun 2020 21:35:32: 7000000 INFO @ Sun, 21 Jun 2020 21:35:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:35:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:35:33: #1 total tags in treatment: 11923117 INFO @ Sun, 21 Jun 2020 21:35:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:33: #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 21:35:34: #1 tags after filtering in treatment: 11922992 INFO @ Sun, 21 Jun 2020 21:35:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:34: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:35: #2 number of paired peaks: 8371 INFO @ Sun, 21 Jun 2020 21:35:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:35: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 21:35:35: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 21:35:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10_model.r INFO @ Sun, 21 Jun 2020 21:35:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:39: 8000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:35:47: 9000000 INFO @ Sun, 21 Jun 2020 21:35:54: 10000000 INFO @ Sun, 21 Jun 2020 21:35:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:01: 11000000 INFO @ Sun, 21 Jun 2020 21:36:08: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:36:08: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:36:08: #1 total tags in treatment: 11923117 INFO @ Sun, 21 Jun 2020 21:36:08: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:36:08: #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 21:36:09: #1 tags after filtering in treatment: 11922992 INFO @ Sun, 21 Jun 2020 21:36:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:36:09: #1 finished! INFO @ Sun, 21 Jun 2020 21:36:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:36:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:36:10: #2 number of paired peaks: 8371 INFO @ Sun, 21 Jun 2020 21:36:10: start model_add_line... INFO @ Sun, 21 Jun 2020 21:36:10: start X-correlation... INFO @ Sun, 21 Jun 2020 21:36:10: end of X-cor INFO @ Sun, 21 Jun 2020 21:36:10: #2 finished! INFO @ Sun, 21 Jun 2020 21:36:10: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 21:36:10: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 21:36:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20_model.r INFO @ Sun, 21 Jun 2020 21:36:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:36:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:36:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.05_summits.bed INFO @ Sun, 21 Jun 2020 21:36:12: Done! pass1 - making usageList (349 chroms): 2 millis pass2 - checking and writing primary data (11273 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:17: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.10_summits.bed INFO @ Sun, 21 Jun 2020 21:36:33: Done! pass1 - making usageList (232 chroms): 2 millis pass2 - checking and writing primary data (9146 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:37:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:37:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:37:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011096/SRX5011096.20_summits.bed INFO @ Sun, 21 Jun 2020 21:37:08: Done! pass1 - making usageList (164 chroms): 2 millis pass2 - checking and writing primary data (7018 records, 4 fields): 12 millis CompletedMACS2peakCalling