Job ID = 14519627 SRX = SRX6581733 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 34162682 spots for SRR9825066/SRR9825066.sra Written 34162682 spots for SRR9825066/SRR9825066.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: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:42:55 34162682 reads; of these: 34162682 (100.00%) were unpaired; of these: 1127874 (3.30%) aligned 0 times 28620989 (83.78%) aligned exactly 1 time 4413819 (12.92%) aligned >1 times 96.70% overall alignment rate Time searching: 00:42:57 Overall time: 00:42:57 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 953 sequences. [bam_sort_core] merging from 16 files... [bam_rmdupse_core] 2213630 / 33034808 = 0.0670 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 17:50:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.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 17:50:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:50:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:51:03: 1000000 INFO @ Sat, 15 Jan 2022 17:51:10: 2000000 INFO @ Sat, 15 Jan 2022 17:51:16: 3000000 INFO @ Sat, 15 Jan 2022 17:51:23: 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 17:51:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.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 17:51:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:51:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:51:29: 5000000 INFO @ Sat, 15 Jan 2022 17:51:33: 1000000 INFO @ Sat, 15 Jan 2022 17:51:37: 6000000 INFO @ Sat, 15 Jan 2022 17:51:41: 2000000 INFO @ Sat, 15 Jan 2022 17:51:44: 7000000 INFO @ Sat, 15 Jan 2022 17:51:48: 3000000 INFO @ Sat, 15 Jan 2022 17:51:51: 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 17:51:56: 4000000 INFO @ Sat, 15 Jan 2022 17:51:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.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 17:51:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:51:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:51:58: 9000000 INFO @ Sat, 15 Jan 2022 17:52:03: 5000000 INFO @ Sat, 15 Jan 2022 17:52:04: 1000000 INFO @ Sat, 15 Jan 2022 17:52:06: 10000000 INFO @ Sat, 15 Jan 2022 17:52:10: 6000000 INFO @ Sat, 15 Jan 2022 17:52:12: 2000000 INFO @ Sat, 15 Jan 2022 17:52:13: 11000000 INFO @ Sat, 15 Jan 2022 17:52:20: 7000000 INFO @ Sat, 15 Jan 2022 17:52:20: 3000000 INFO @ Sat, 15 Jan 2022 17:52:20: 12000000 INFO @ Sat, 15 Jan 2022 17:52:27: 8000000 INFO @ Sat, 15 Jan 2022 17:52:28: 13000000 INFO @ Sat, 15 Jan 2022 17:52:28: 4000000 INFO @ Sat, 15 Jan 2022 17:52:34: 9000000 INFO @ Sat, 15 Jan 2022 17:52:35: 14000000 INFO @ Sat, 15 Jan 2022 17:52:35: 5000000 INFO @ Sat, 15 Jan 2022 17:52:42: 10000000 INFO @ Sat, 15 Jan 2022 17:52:42: 15000000 INFO @ Sat, 15 Jan 2022 17:52:42: 6000000 INFO @ Sat, 15 Jan 2022 17:52:49: 11000000 INFO @ Sat, 15 Jan 2022 17:52:49: 16000000 INFO @ Sat, 15 Jan 2022 17:52:50: 7000000 INFO @ Sat, 15 Jan 2022 17:52:56: 12000000 INFO @ Sat, 15 Jan 2022 17:52:57: 17000000 INFO @ Sat, 15 Jan 2022 17:52:57: 8000000 INFO @ Sat, 15 Jan 2022 17:53:03: 13000000 INFO @ Sat, 15 Jan 2022 17:53:04: 18000000 INFO @ Sat, 15 Jan 2022 17:53:04: 9000000 INFO @ Sat, 15 Jan 2022 17:53:10: 14000000 INFO @ Sat, 15 Jan 2022 17:53:11: 19000000 INFO @ Sat, 15 Jan 2022 17:53:12: 10000000 INFO @ Sat, 15 Jan 2022 17:53:18: 15000000 INFO @ Sat, 15 Jan 2022 17:53:18: 20000000 INFO @ Sat, 15 Jan 2022 17:53:19: 11000000 INFO @ Sat, 15 Jan 2022 17:53:25: 16000000 INFO @ Sat, 15 Jan 2022 17:53:25: 21000000 INFO @ Sat, 15 Jan 2022 17:53:26: 12000000 INFO @ Sat, 15 Jan 2022 17:53:32: 17000000 INFO @ Sat, 15 Jan 2022 17:53:33: 22000000 INFO @ Sat, 15 Jan 2022 17:53:34: 13000000 INFO @ Sat, 15 Jan 2022 17:53:39: 18000000 INFO @ Sat, 15 Jan 2022 17:53:40: 23000000 INFO @ Sat, 15 Jan 2022 17:53:41: 14000000 INFO @ Sat, 15 Jan 2022 17:53:47: 19000000 INFO @ Sat, 15 Jan 2022 17:53:47: 24000000 INFO @ Sat, 15 Jan 2022 17:53:48: 15000000 INFO @ Sat, 15 Jan 2022 17:53:54: 20000000 INFO @ Sat, 15 Jan 2022 17:53:55: 25000000 INFO @ Sat, 15 Jan 2022 17:53:55: 16000000 INFO @ Sat, 15 Jan 2022 17:54:01: 21000000 INFO @ Sat, 15 Jan 2022 17:54:02: 17000000 INFO @ Sat, 15 Jan 2022 17:54:02: 26000000 INFO @ Sat, 15 Jan 2022 17:54:08: 22000000 INFO @ Sat, 15 Jan 2022 17:54:10: 18000000 INFO @ Sat, 15 Jan 2022 17:54:10: 27000000 INFO @ Sat, 15 Jan 2022 17:54:15: 23000000 INFO @ Sat, 15 Jan 2022 17:54:17: 19000000 INFO @ Sat, 15 Jan 2022 17:54:18: 28000000 INFO @ Sat, 15 Jan 2022 17:54:23: 24000000 INFO @ Sat, 15 Jan 2022 17:54:25: 20000000 INFO @ Sat, 15 Jan 2022 17:54:25: 29000000 INFO @ Sat, 15 Jan 2022 17:54:31: 25000000 INFO @ Sat, 15 Jan 2022 17:54:32: 21000000 INFO @ Sat, 15 Jan 2022 17:54:33: 30000000 INFO @ Sat, 15 Jan 2022 17:54:39: 26000000 INFO @ Sat, 15 Jan 2022 17:54:40: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:54:40: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:54:40: #1 total tags in treatment: 30821178 INFO @ Sat, 15 Jan 2022 17:54:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:54:40: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:54:40: 22000000 INFO @ Sat, 15 Jan 2022 17:54:40: #1 tags after filtering in treatment: 30820998 INFO @ Sat, 15 Jan 2022 17:54:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:54:40: #1 finished! INFO @ Sat, 15 Jan 2022 17:54:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:54:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:54:45: #2 number of paired peaks: 98522 INFO @ Sat, 15 Jan 2022 17:54:45: start model_add_line... INFO @ Sat, 15 Jan 2022 17:54:46: start X-correlation... INFO @ Sat, 15 Jan 2022 17:54:46: end of X-cor INFO @ Sat, 15 Jan 2022 17:54:46: #2 finished! INFO @ Sat, 15 Jan 2022 17:54:46: #2 predicted fragment length is 219 bps INFO @ Sat, 15 Jan 2022 17:54:46: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 15 Jan 2022 17:54:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05_model.r INFO @ Sat, 15 Jan 2022 17:54:46: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:54:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:54:47: 27000000 INFO @ Sat, 15 Jan 2022 17:54:47: 23000000 INFO @ Sat, 15 Jan 2022 17:54:55: 24000000 INFO @ Sat, 15 Jan 2022 17:54:55: 28000000 INFO @ Sat, 15 Jan 2022 17:55:02: 25000000 INFO @ Sat, 15 Jan 2022 17:55:03: 29000000 INFO @ Sat, 15 Jan 2022 17:55:10: 30000000 INFO @ Sat, 15 Jan 2022 17:55:10: 26000000 INFO @ Sat, 15 Jan 2022 17:55:16: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:55:16: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:55:16: #1 total tags in treatment: 30821178 INFO @ Sat, 15 Jan 2022 17:55:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:55:16: #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 17:55:17: #1 tags after filtering in treatment: 30820998 INFO @ Sat, 15 Jan 2022 17:55:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:55:17: #1 finished! INFO @ Sat, 15 Jan 2022 17:55:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:55:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:55:18: 27000000 INFO @ Sat, 15 Jan 2022 17:55:22: #2 number of paired peaks: 98522 INFO @ Sat, 15 Jan 2022 17:55:22: start model_add_line... INFO @ Sat, 15 Jan 2022 17:55:23: start X-correlation... INFO @ Sat, 15 Jan 2022 17:55:23: end of X-cor INFO @ Sat, 15 Jan 2022 17:55:23: #2 finished! INFO @ Sat, 15 Jan 2022 17:55:23: #2 predicted fragment length is 219 bps INFO @ Sat, 15 Jan 2022 17:55:23: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 15 Jan 2022 17:55:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10_model.r INFO @ Sat, 15 Jan 2022 17:55:23: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:55:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:55:25: 28000000 INFO @ Sat, 15 Jan 2022 17:55:32: 29000000 INFO @ Sat, 15 Jan 2022 17:55:39: 30000000 INFO @ Sat, 15 Jan 2022 17:55:44: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:55:44: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:55:44: #1 total tags in treatment: 30821178 INFO @ Sat, 15 Jan 2022 17:55:44: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:55:44: #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 17:55:45: #1 tags after filtering in treatment: 30820998 INFO @ Sat, 15 Jan 2022 17:55:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:55:45: #1 finished! INFO @ Sat, 15 Jan 2022 17:55:45: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:55:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:55:50: #2 number of paired peaks: 98522 INFO @ Sat, 15 Jan 2022 17:55:50: start model_add_line... INFO @ Sat, 15 Jan 2022 17:55:51: start X-correlation... INFO @ Sat, 15 Jan 2022 17:55:51: end of X-cor INFO @ Sat, 15 Jan 2022 17:55:51: #2 finished! INFO @ Sat, 15 Jan 2022 17:55:51: #2 predicted fragment length is 219 bps INFO @ Sat, 15 Jan 2022 17:55:51: #2 alternative fragment length(s) may be 219 bps INFO @ Sat, 15 Jan 2022 17:55:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20_model.r INFO @ Sat, 15 Jan 2022 17:55:51: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:55:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:55:58: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:56:33: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:56:38: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:56:38: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:56:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.05_summits.bed INFO @ Sat, 15 Jan 2022 17:56:39: Done! pass1 - making usageList (130 chroms): 5 millis pass2 - checking and writing primary data (34073 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:57:05: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:57:12: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:57:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:57:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.10_summits.bed INFO @ Sat, 15 Jan 2022 17:57:12: Done! pass1 - making usageList (92 chroms): 3 millis pass2 - checking and writing primary data (20679 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:57:46: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:57:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:57:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581733/SRX6581733.20_summits.bed INFO @ Sat, 15 Jan 2022 17:57:46: Done! pass1 - making usageList (71 chroms): 3 millis pass2 - checking and writing primary data (12870 records, 4 fields): 15 millis CompletedMACS2peakCalling