Job ID = 14517856 SRX = SRX6581751 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 28842345 spots for SRR9825084/SRR9825084.sra Written 28842345 spots for SRR9825084/SRR9825084.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:34:22 28842345 reads; of these: 28842345 (100.00%) were unpaired; of these: 815478 (2.83%) aligned 0 times 19965393 (69.22%) aligned exactly 1 time 8061474 (27.95%) aligned >1 times 97.17% overall alignment rate Time searching: 00:34:26 Overall time: 00:34:26 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] 4678299 / 28026867 = 0.1669 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 06:15:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.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 06:15:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:15:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:15:50: 1000000 INFO @ Sat, 15 Jan 2022 06:15:56: 2000000 INFO @ Sat, 15 Jan 2022 06:16:03: 3000000 INFO @ Sat, 15 Jan 2022 06:16:10: 4000000 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 06:16:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.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 06:16:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:16:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:16:17: 5000000 INFO @ Sat, 15 Jan 2022 06:16:21: 1000000 INFO @ Sat, 15 Jan 2022 06:16:24: 6000000 INFO @ Sat, 15 Jan 2022 06:16:28: 2000000 INFO @ Sat, 15 Jan 2022 06:16:31: 7000000 INFO @ Sat, 15 Jan 2022 06:16:36: 3000000 INFO @ Sat, 15 Jan 2022 06:16:39: 8000000 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 06:16:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.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 06:16:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:16:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:16:43: 4000000 INFO @ Sat, 15 Jan 2022 06:16:46: 9000000 INFO @ Sat, 15 Jan 2022 06:16:51: 5000000 INFO @ Sat, 15 Jan 2022 06:16:51: 1000000 INFO @ Sat, 15 Jan 2022 06:16:54: 10000000 INFO @ Sat, 15 Jan 2022 06:16:58: 2000000 INFO @ Sat, 15 Jan 2022 06:16:58: 6000000 INFO @ Sat, 15 Jan 2022 06:17:01: 11000000 INFO @ Sat, 15 Jan 2022 06:17:06: 3000000 INFO @ Sat, 15 Jan 2022 06:17:06: 7000000 INFO @ Sat, 15 Jan 2022 06:17:09: 12000000 INFO @ Sat, 15 Jan 2022 06:17:13: 4000000 INFO @ Sat, 15 Jan 2022 06:17:14: 8000000 INFO @ Sat, 15 Jan 2022 06:17:16: 13000000 INFO @ Sat, 15 Jan 2022 06:17:21: 5000000 INFO @ Sat, 15 Jan 2022 06:17:21: 9000000 INFO @ Sat, 15 Jan 2022 06:17:24: 14000000 INFO @ Sat, 15 Jan 2022 06:17:28: 6000000 INFO @ Sat, 15 Jan 2022 06:17:28: 10000000 INFO @ Sat, 15 Jan 2022 06:17:31: 15000000 INFO @ Sat, 15 Jan 2022 06:17:35: 11000000 INFO @ Sat, 15 Jan 2022 06:17:35: 7000000 INFO @ Sat, 15 Jan 2022 06:17:39: 16000000 INFO @ Sat, 15 Jan 2022 06:17:42: 12000000 INFO @ Sat, 15 Jan 2022 06:17:43: 8000000 INFO @ Sat, 15 Jan 2022 06:17:46: 17000000 INFO @ Sat, 15 Jan 2022 06:17:49: 13000000 INFO @ Sat, 15 Jan 2022 06:17:50: 9000000 INFO @ Sat, 15 Jan 2022 06:17:53: 18000000 INFO @ Sat, 15 Jan 2022 06:17:56: 14000000 INFO @ Sat, 15 Jan 2022 06:17:57: 10000000 INFO @ Sat, 15 Jan 2022 06:18:01: 19000000 INFO @ Sat, 15 Jan 2022 06:18:04: 15000000 INFO @ Sat, 15 Jan 2022 06:18:05: 11000000 INFO @ Sat, 15 Jan 2022 06:18:08: 20000000 INFO @ Sat, 15 Jan 2022 06:18:11: 16000000 INFO @ Sat, 15 Jan 2022 06:18:12: 12000000 INFO @ Sat, 15 Jan 2022 06:18:15: 21000000 INFO @ Sat, 15 Jan 2022 06:18:18: 17000000 INFO @ Sat, 15 Jan 2022 06:18:19: 13000000 INFO @ Sat, 15 Jan 2022 06:18:23: 22000000 INFO @ Sat, 15 Jan 2022 06:18:26: 18000000 INFO @ Sat, 15 Jan 2022 06:18:26: 14000000 INFO @ Sat, 15 Jan 2022 06:18:30: 23000000 INFO @ Sat, 15 Jan 2022 06:18:33: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:18:33: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:18:33: #1 total tags in treatment: 23348568 INFO @ Sat, 15 Jan 2022 06:18:33: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:18:33: #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 06:18:34: #1 tags after filtering in treatment: 23348452 INFO @ Sat, 15 Jan 2022 06:18:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:18:34: #1 finished! INFO @ Sat, 15 Jan 2022 06:18:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:18:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:18:34: 19000000 INFO @ Sat, 15 Jan 2022 06:18:34: 15000000 INFO @ Sat, 15 Jan 2022 06:18:36: #2 number of paired peaks: 20748 INFO @ Sat, 15 Jan 2022 06:18:36: start model_add_line... INFO @ Sat, 15 Jan 2022 06:18:36: start X-correlation... INFO @ Sat, 15 Jan 2022 06:18:36: end of X-cor INFO @ Sat, 15 Jan 2022 06:18:36: #2 finished! INFO @ Sat, 15 Jan 2022 06:18:36: #2 predicted fragment length is 158 bps INFO @ Sat, 15 Jan 2022 06:18:36: #2 alternative fragment length(s) may be 158 bps INFO @ Sat, 15 Jan 2022 06:18:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05_model.r INFO @ Sat, 15 Jan 2022 06:18:36: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:18:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:18:41: 20000000 INFO @ Sat, 15 Jan 2022 06:18:41: 16000000 INFO @ Sat, 15 Jan 2022 06:18:48: 21000000 INFO @ Sat, 15 Jan 2022 06:18:48: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 06:18:55: 22000000 INFO @ Sat, 15 Jan 2022 06:18:56: 18000000 INFO @ Sat, 15 Jan 2022 06:19:03: 23000000 INFO @ Sat, 15 Jan 2022 06:19:03: 19000000 INFO @ Sat, 15 Jan 2022 06:19:05: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:19:05: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:19:05: #1 total tags in treatment: 23348568 INFO @ Sat, 15 Jan 2022 06:19:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:19:05: #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 06:19:06: #1 tags after filtering in treatment: 23348452 INFO @ Sat, 15 Jan 2022 06:19:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:19:06: #1 finished! INFO @ Sat, 15 Jan 2022 06:19:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:19:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:19:08: #2 number of paired peaks: 20748 INFO @ Sat, 15 Jan 2022 06:19:08: start model_add_line... INFO @ Sat, 15 Jan 2022 06:19:08: start X-correlation... INFO @ Sat, 15 Jan 2022 06:19:08: end of X-cor INFO @ Sat, 15 Jan 2022 06:19:08: #2 finished! INFO @ Sat, 15 Jan 2022 06:19:08: #2 predicted fragment length is 158 bps INFO @ Sat, 15 Jan 2022 06:19:08: #2 alternative fragment length(s) may be 158 bps INFO @ Sat, 15 Jan 2022 06:19:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10_model.r INFO @ Sat, 15 Jan 2022 06:19:08: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:19:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:19:09: 20000000 INFO @ Sat, 15 Jan 2022 06:19:16: 21000000 INFO @ Sat, 15 Jan 2022 06:19:22: 22000000 INFO @ Sat, 15 Jan 2022 06:19:28: 23000000 INFO @ Sat, 15 Jan 2022 06:19:29: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:19:30: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:19:30: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:19:30: #1 total tags in treatment: 23348568 INFO @ Sat, 15 Jan 2022 06:19:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:19:30: #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 06:19:31: #1 tags after filtering in treatment: 23348452 INFO @ Sat, 15 Jan 2022 06:19:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:19:31: #1 finished! INFO @ Sat, 15 Jan 2022 06:19:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:19:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:19:33: #2 number of paired peaks: 20748 INFO @ Sat, 15 Jan 2022 06:19:33: start model_add_line... INFO @ Sat, 15 Jan 2022 06:19:33: start X-correlation... INFO @ Sat, 15 Jan 2022 06:19:33: end of X-cor INFO @ Sat, 15 Jan 2022 06:19:33: #2 finished! INFO @ Sat, 15 Jan 2022 06:19:33: #2 predicted fragment length is 158 bps INFO @ Sat, 15 Jan 2022 06:19:33: #2 alternative fragment length(s) may be 158 bps INFO @ Sat, 15 Jan 2022 06:19:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20_model.r INFO @ Sat, 15 Jan 2022 06:19:33: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:19:33: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 06:19:58: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05_peaks.xls INFO @ Sat, 15 Jan 2022 06:19:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:19:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.05_summits.bed INFO @ Sat, 15 Jan 2022 06:19:58: Done! pass1 - making usageList (82 chroms): 2 millis pass2 - checking and writing primary data (16697 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:20:03: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:20:25: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:20:31: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10_peaks.xls INFO @ Sat, 15 Jan 2022 06:20:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:20:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.10_summits.bed INFO @ Sat, 15 Jan 2022 06:20:31: Done! pass1 - making usageList (65 chroms): 2 millis pass2 - checking and writing primary data (9991 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:20:52: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20_peaks.xls INFO @ Sat, 15 Jan 2022 06:20:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:20:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581751/SRX6581751.20_summits.bed INFO @ Sat, 15 Jan 2022 06:20:52: Done! pass1 - making usageList (50 chroms): 2 millis pass2 - checking and writing primary data (4963 records, 4 fields): 7 millis CompletedMACS2peakCalling