Job ID = 14518873 SRX = ERX5409219 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 35096686 spots for ERR5693765/ERR5693765.sra Written 35096686 spots for ERR5693765/ERR5693765.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: 00:00:01 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:22:28 35096686 reads; of these: 35096686 (100.00%) were unpaired; of these: 1153086 (3.29%) aligned 0 times 29488784 (84.02%) aligned exactly 1 time 4454816 (12.69%) aligned >1 times 96.71% overall alignment rate Time searching: 00:22:31 Overall time: 00:22:33 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] 5020359 / 33943600 = 0.1479 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 13:09:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.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 13:09:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:09:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:09:37: 1000000 INFO @ Sat, 15 Jan 2022 13:09:44: 2000000 INFO @ Sat, 15 Jan 2022 13:09:51: 3000000 INFO @ Sat, 15 Jan 2022 13:09:57: 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 13:10:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.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 13:10:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:10:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:10:04: 5000000 INFO @ Sat, 15 Jan 2022 13:10:07: 1000000 INFO @ Sat, 15 Jan 2022 13:10:12: 6000000 INFO @ Sat, 15 Jan 2022 13:10:14: 2000000 INFO @ Sat, 15 Jan 2022 13:10:20: 7000000 INFO @ Sat, 15 Jan 2022 13:10:21: 3000000 BedGraph に変換中... INFO @ Sat, 15 Jan 2022 13:10:28: 8000000 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 13:10:29: 4000000 INFO @ Sat, 15 Jan 2022 13:10:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.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 13:10:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 13:10:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 13:10:36: 9000000 INFO @ Sat, 15 Jan 2022 13:10:36: 5000000 INFO @ Sat, 15 Jan 2022 13:10:37: 1000000 INFO @ Sat, 15 Jan 2022 13:10:43: 10000000 INFO @ Sat, 15 Jan 2022 13:10:44: 6000000 INFO @ Sat, 15 Jan 2022 13:10:44: 2000000 INFO @ Sat, 15 Jan 2022 13:10:51: 3000000 INFO @ Sat, 15 Jan 2022 13:10:51: 7000000 INFO @ Sat, 15 Jan 2022 13:10:51: 11000000 INFO @ Sat, 15 Jan 2022 13:10:59: 4000000 INFO @ Sat, 15 Jan 2022 13:10:59: 8000000 INFO @ Sat, 15 Jan 2022 13:11:00: 12000000 INFO @ Sat, 15 Jan 2022 13:11:06: 5000000 INFO @ Sat, 15 Jan 2022 13:11:07: 9000000 INFO @ Sat, 15 Jan 2022 13:11:08: 13000000 INFO @ Sat, 15 Jan 2022 13:11:14: 6000000 INFO @ Sat, 15 Jan 2022 13:11:15: 10000000 INFO @ Sat, 15 Jan 2022 13:11:15: 14000000 INFO @ Sat, 15 Jan 2022 13:11:21: 7000000 INFO @ Sat, 15 Jan 2022 13:11:23: 11000000 INFO @ Sat, 15 Jan 2022 13:11:24: 15000000 INFO @ Sat, 15 Jan 2022 13:11:29: 8000000 INFO @ Sat, 15 Jan 2022 13:11:31: 12000000 INFO @ Sat, 15 Jan 2022 13:11:32: 16000000 INFO @ Sat, 15 Jan 2022 13:11:36: 9000000 INFO @ Sat, 15 Jan 2022 13:11:39: 13000000 INFO @ Sat, 15 Jan 2022 13:11:40: 17000000 INFO @ Sat, 15 Jan 2022 13:11:44: 10000000 INFO @ Sat, 15 Jan 2022 13:11:47: 14000000 INFO @ Sat, 15 Jan 2022 13:11:47: 18000000 INFO @ Sat, 15 Jan 2022 13:11:51: 11000000 INFO @ Sat, 15 Jan 2022 13:11:54: 15000000 INFO @ Sat, 15 Jan 2022 13:11:55: 19000000 INFO @ Sat, 15 Jan 2022 13:11:59: 12000000 INFO @ Sat, 15 Jan 2022 13:12:02: 16000000 INFO @ Sat, 15 Jan 2022 13:12:03: 20000000 INFO @ Sat, 15 Jan 2022 13:12:06: 13000000 INFO @ Sat, 15 Jan 2022 13:12:09: 17000000 INFO @ Sat, 15 Jan 2022 13:12:11: 21000000 INFO @ Sat, 15 Jan 2022 13:12:13: 14000000 INFO @ Sat, 15 Jan 2022 13:12:16: 18000000 INFO @ Sat, 15 Jan 2022 13:12:19: 22000000 INFO @ Sat, 15 Jan 2022 13:12:21: 15000000 INFO @ Sat, 15 Jan 2022 13:12:24: 19000000 INFO @ Sat, 15 Jan 2022 13:12:27: 23000000 INFO @ Sat, 15 Jan 2022 13:12:29: 16000000 INFO @ Sat, 15 Jan 2022 13:12:32: 20000000 INFO @ Sat, 15 Jan 2022 13:12:35: 24000000 INFO @ Sat, 15 Jan 2022 13:12:37: 17000000 INFO @ Sat, 15 Jan 2022 13:12:41: 21000000 INFO @ Sat, 15 Jan 2022 13:12:42: 25000000 INFO @ Sat, 15 Jan 2022 13:12:45: 18000000 INFO @ Sat, 15 Jan 2022 13:12:48: 22000000 INFO @ Sat, 15 Jan 2022 13:12:50: 26000000 INFO @ Sat, 15 Jan 2022 13:12:53: 19000000 INFO @ Sat, 15 Jan 2022 13:12:57: 23000000 INFO @ Sat, 15 Jan 2022 13:12:59: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 13:13:00: 20000000 INFO @ Sat, 15 Jan 2022 13:13:05: 24000000 INFO @ Sat, 15 Jan 2022 13:13:08: 28000000 INFO @ Sat, 15 Jan 2022 13:13:08: 21000000 INFO @ Sat, 15 Jan 2022 13:13:13: 25000000 INFO @ Sat, 15 Jan 2022 13:13:15: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:13:15: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:13:15: #1 total tags in treatment: 28923241 INFO @ Sat, 15 Jan 2022 13:13:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:13:15: #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 13:13:16: #1 tags after filtering in treatment: 28923087 INFO @ Sat, 15 Jan 2022 13:13:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:13:16: #1 finished! INFO @ Sat, 15 Jan 2022 13:13:16: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:13:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 13:13:16: 22000000 INFO @ Sat, 15 Jan 2022 13:13:21: 26000000 INFO @ Sat, 15 Jan 2022 13:13:21: #2 number of paired peaks: 94818 INFO @ Sat, 15 Jan 2022 13:13:21: start model_add_line... INFO @ Sat, 15 Jan 2022 13:13:21: start X-correlation... INFO @ Sat, 15 Jan 2022 13:13:21: end of X-cor INFO @ Sat, 15 Jan 2022 13:13:21: #2 finished! INFO @ Sat, 15 Jan 2022 13:13:21: #2 predicted fragment length is 222 bps INFO @ Sat, 15 Jan 2022 13:13:21: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 15 Jan 2022 13:13:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05_model.r INFO @ Sat, 15 Jan 2022 13:13:21: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:13:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:13:23: 23000000 INFO @ Sat, 15 Jan 2022 13:13:29: 27000000 INFO @ Sat, 15 Jan 2022 13:13:31: 24000000 INFO @ Sat, 15 Jan 2022 13:13:36: 28000000 INFO @ Sat, 15 Jan 2022 13:13:39: 25000000 INFO @ Sat, 15 Jan 2022 13:13:43: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:13:43: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:13:43: #1 total tags in treatment: 28923241 INFO @ Sat, 15 Jan 2022 13:13:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:13:43: #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 13:13:44: #1 tags after filtering in treatment: 28923087 INFO @ Sat, 15 Jan 2022 13:13:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:13:44: #1 finished! INFO @ Sat, 15 Jan 2022 13:13:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:13:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 13:13:46: 26000000 INFO @ Sat, 15 Jan 2022 13:13:49: #2 number of paired peaks: 94818 INFO @ Sat, 15 Jan 2022 13:13:49: start model_add_line... INFO @ Sat, 15 Jan 2022 13:13:50: start X-correlation... INFO @ Sat, 15 Jan 2022 13:13:50: end of X-cor INFO @ Sat, 15 Jan 2022 13:13:50: #2 finished! INFO @ Sat, 15 Jan 2022 13:13:50: #2 predicted fragment length is 222 bps INFO @ Sat, 15 Jan 2022 13:13:50: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 15 Jan 2022 13:13:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10_model.r INFO @ Sat, 15 Jan 2022 13:13:50: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:13:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:13:53: 27000000 INFO @ Sat, 15 Jan 2022 13:14:00: 28000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 13:14:07: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 13:14:07: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 13:14:07: #1 total tags in treatment: 28923241 INFO @ Sat, 15 Jan 2022 13:14:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 13:14:07: #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 13:14:08: #1 tags after filtering in treatment: 28923087 INFO @ Sat, 15 Jan 2022 13:14:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 13:14:08: #1 finished! INFO @ Sat, 15 Jan 2022 13:14:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 13:14:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 13:14:13: #2 number of paired peaks: 94818 INFO @ Sat, 15 Jan 2022 13:14:13: start model_add_line... INFO @ Sat, 15 Jan 2022 13:14:14: start X-correlation... INFO @ Sat, 15 Jan 2022 13:14:14: end of X-cor INFO @ Sat, 15 Jan 2022 13:14:14: #2 finished! INFO @ Sat, 15 Jan 2022 13:14:14: #2 predicted fragment length is 222 bps INFO @ Sat, 15 Jan 2022 13:14:14: #2 alternative fragment length(s) may be 222 bps INFO @ Sat, 15 Jan 2022 13:14:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20_model.r INFO @ Sat, 15 Jan 2022 13:14:14: #3 Call peaks... INFO @ Sat, 15 Jan 2022 13:14:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 13:14:35: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:15:00: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:15:15: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05_peaks.xls INFO @ Sat, 15 Jan 2022 13:15:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:15:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.05_summits.bed INFO @ Sat, 15 Jan 2022 13:15:16: Done! pass1 - making usageList (118 chroms): 5 millis pass2 - checking and writing primary data (36848 records, 4 fields): 49 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 13:15:31: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 13:15:40: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10_peaks.xls INFO @ Sat, 15 Jan 2022 13:15:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:15:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.10_summits.bed INFO @ Sat, 15 Jan 2022 13:15:41: Done! pass1 - making usageList (100 chroms): 4 millis pass2 - checking and writing primary data (25040 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 13:16:10: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20_peaks.xls INFO @ Sat, 15 Jan 2022 13:16:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 13:16:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX5409219/ERX5409219.20_summits.bed INFO @ Sat, 15 Jan 2022 13:16:10: Done! pass1 - making usageList (69 chroms): 3 millis pass2 - checking and writing primary data (14937 records, 4 fields): 16 millis CompletedMACS2peakCalling