Job ID = 14519612 SRX = SRX6581724 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28833296 spots for SRR9825057/SRR9825057.sra Written 28833296 spots for SRR9825057/SRR9825057.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:34:08 28833296 reads; of these: 28833296 (100.00%) were unpaired; of these: 890261 (3.09%) aligned 0 times 20855790 (72.33%) aligned exactly 1 time 7087245 (24.58%) aligned >1 times 96.91% overall alignment rate Time searching: 00:34:10 Overall time: 00:34:10 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 953 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7731331 / 27943035 = 0.2767 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:27:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:27:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:27:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:27:25: 1000000 INFO @ Sat, 15 Jan 2022 17:27:31: 2000000 INFO @ Sat, 15 Jan 2022 17:27:36: 3000000 INFO @ Sat, 15 Jan 2022 17:27:42: 4000000 INFO @ Sat, 15 Jan 2022 17:27:47: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:27:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:27:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:27:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:27:53: 6000000 INFO @ Sat, 15 Jan 2022 17:27:57: 1000000 INFO @ Sat, 15 Jan 2022 17:27:59: 7000000 INFO @ Sat, 15 Jan 2022 17:28:04: 2000000 INFO @ Sat, 15 Jan 2022 17:28:05: 8000000 INFO @ Sat, 15 Jan 2022 17:28:11: 3000000 INFO @ Sat, 15 Jan 2022 17:28:11: 9000000 INFO @ Sat, 15 Jan 2022 17:28:17: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 17:28:18: 4000000 INFO @ Sat, 15 Jan 2022 17:28:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.bam'] # control file = None # effective genome size = 2.15e+09 # 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 @ Sat, 15 Jan 2022 17:28:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:28:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:28:24: 11000000 INFO @ Sat, 15 Jan 2022 17:28:26: 5000000 INFO @ Sat, 15 Jan 2022 17:28:26: 1000000 INFO @ Sat, 15 Jan 2022 17:28:30: 12000000 INFO @ Sat, 15 Jan 2022 17:28:32: 2000000 INFO @ Sat, 15 Jan 2022 17:28:33: 6000000 INFO @ Sat, 15 Jan 2022 17:28:36: 13000000 INFO @ Sat, 15 Jan 2022 17:28:39: 3000000 INFO @ Sat, 15 Jan 2022 17:28:40: 7000000 INFO @ Sat, 15 Jan 2022 17:28:42: 14000000 INFO @ Sat, 15 Jan 2022 17:28:45: 4000000 INFO @ Sat, 15 Jan 2022 17:28:47: 8000000 INFO @ Sat, 15 Jan 2022 17:28:48: 15000000 INFO @ Sat, 15 Jan 2022 17:28:51: 5000000 INFO @ Sat, 15 Jan 2022 17:28:54: 16000000 INFO @ Sat, 15 Jan 2022 17:28:54: 9000000 INFO @ Sat, 15 Jan 2022 17:28:57: 6000000 INFO @ Sat, 15 Jan 2022 17:29:00: 17000000 INFO @ Sat, 15 Jan 2022 17:29:01: 10000000 INFO @ Sat, 15 Jan 2022 17:29:03: 7000000 INFO @ Sat, 15 Jan 2022 17:29:06: 18000000 INFO @ Sat, 15 Jan 2022 17:29:08: 11000000 INFO @ Sat, 15 Jan 2022 17:29:10: 8000000 INFO @ Sat, 15 Jan 2022 17:29:12: 19000000 INFO @ Sat, 15 Jan 2022 17:29:15: 12000000 INFO @ Sat, 15 Jan 2022 17:29:16: 9000000 INFO @ Sat, 15 Jan 2022 17:29:18: 20000000 INFO @ Sat, 15 Jan 2022 17:29:20: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:29:20: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:29:20: #1 total tags in treatment: 20211704 INFO @ Sat, 15 Jan 2022 17:29:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:29:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:29:20: #1 tags after filtering in treatment: 20211581 INFO @ Sat, 15 Jan 2022 17:29:20: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:29:20: #1 finished! INFO @ Sat, 15 Jan 2022 17:29:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:29:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:29:22: 10000000 INFO @ Sat, 15 Jan 2022 17:29:22: #2 number of paired peaks: 16555 INFO @ Sat, 15 Jan 2022 17:29:22: start model_add_line... INFO @ Sat, 15 Jan 2022 17:29:22: 13000000 INFO @ Sat, 15 Jan 2022 17:29:23: start X-correlation... INFO @ Sat, 15 Jan 2022 17:29:23: end of X-cor INFO @ Sat, 15 Jan 2022 17:29:23: #2 finished! INFO @ Sat, 15 Jan 2022 17:29:23: #2 predicted fragment length is 151 bps INFO @ Sat, 15 Jan 2022 17:29:23: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 15 Jan 2022 17:29:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05_model.r INFO @ Sat, 15 Jan 2022 17:29:23: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:29:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:29:28: 11000000 INFO @ Sat, 15 Jan 2022 17:29:29: 14000000 INFO @ Sat, 15 Jan 2022 17:29:34: 12000000 INFO @ Sat, 15 Jan 2022 17:29:37: 15000000 INFO @ Sat, 15 Jan 2022 17:29:40: 13000000 INFO @ Sat, 15 Jan 2022 17:29:44: 16000000 INFO @ Sat, 15 Jan 2022 17:29:46: 14000000 INFO @ Sat, 15 Jan 2022 17:29:50: 17000000 INFO @ Sat, 15 Jan 2022 17:29:52: 15000000 INFO @ Sat, 15 Jan 2022 17:29:58: 18000000 INFO @ Sat, 15 Jan 2022 17:29:58: 16000000 INFO @ Sat, 15 Jan 2022 17:30:04: 17000000 INFO @ Sat, 15 Jan 2022 17:30:05: 19000000 INFO @ Sat, 15 Jan 2022 17:30:07: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:30:10: 18000000 INFO @ Sat, 15 Jan 2022 17:30:12: 20000000 INFO @ Sat, 15 Jan 2022 17:30:14: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:30:14: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:30:14: #1 total tags in treatment: 20211704 INFO @ Sat, 15 Jan 2022 17:30:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:30:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:30:14: #1 tags after filtering in treatment: 20211581 INFO @ Sat, 15 Jan 2022 17:30:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:30:14: #1 finished! INFO @ Sat, 15 Jan 2022 17:30:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:30:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:30:16: #2 number of paired peaks: 16555 INFO @ Sat, 15 Jan 2022 17:30:16: start model_add_line... INFO @ Sat, 15 Jan 2022 17:30:16: start X-correlation... INFO @ Sat, 15 Jan 2022 17:30:16: end of X-cor INFO @ Sat, 15 Jan 2022 17:30:16: #2 finished! INFO @ Sat, 15 Jan 2022 17:30:16: #2 predicted fragment length is 151 bps INFO @ Sat, 15 Jan 2022 17:30:16: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 15 Jan 2022 17:30:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10_model.r INFO @ Sat, 15 Jan 2022 17:30:16: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:30:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:30:16: 19000000 INFO @ Sat, 15 Jan 2022 17:30:22: 20000000 INFO @ Sat, 15 Jan 2022 17:30:23: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:30:23: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:30:23: #1 total tags in treatment: 20211704 INFO @ Sat, 15 Jan 2022 17:30:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:30:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 17:30:24: #1 tags after filtering in treatment: 20211581 INFO @ Sat, 15 Jan 2022 17:30:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:30:24: #1 finished! INFO @ Sat, 15 Jan 2022 17:30:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:30:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:30:26: #2 number of paired peaks: 16555 INFO @ Sat, 15 Jan 2022 17:30:26: start model_add_line... INFO @ Sat, 15 Jan 2022 17:30:26: start X-correlation... INFO @ Sat, 15 Jan 2022 17:30:26: end of X-cor INFO @ Sat, 15 Jan 2022 17:30:26: #2 finished! INFO @ Sat, 15 Jan 2022 17:30:26: #2 predicted fragment length is 151 bps INFO @ Sat, 15 Jan 2022 17:30:26: #2 alternative fragment length(s) may be 151 bps INFO @ Sat, 15 Jan 2022 17:30:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20_model.r INFO @ Sat, 15 Jan 2022 17:30:26: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:30:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:30:30: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:30:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:30:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.05_summits.bed INFO @ Sat, 15 Jan 2022 17:30:30: Done! pass1 - making usageList (75 chroms): 1 millis pass2 - checking and writing primary data (8831 records, 4 fields): 11 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:31:01: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:31:11: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:31:23: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:31:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:31:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.10_summits.bed INFO @ Sat, 15 Jan 2022 17:31:23: Done! pass1 - making usageList (59 chroms): 2 millis pass2 - checking and writing primary data (5092 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:31:33: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:31:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:31:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581724/SRX6581724.20_summits.bed INFO @ Sat, 15 Jan 2022 17:31:33: Done! pass1 - making usageList (40 chroms): 1 millis pass2 - checking and writing primary data (1812 records, 4 fields): 4 millis CompletedMACS2peakCalling