Job ID = 14519514 SRX = ERX2745097 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 79060349 spots for ERR2731872/ERR2731872.sra Written 79060349 spots for ERR2731872/ERR2731872.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: 00:00:02 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:48:26 79060349 reads; of these: 79060349 (100.00%) were unpaired; of these: 2440733 (3.09%) aligned 0 times 66278910 (83.83%) aligned exactly 1 time 10340706 (13.08%) aligned >1 times 96.91% overall alignment rate Time searching: 00:48:28 Overall time: 00:48:28 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 32 files... [bam_rmdupse_core] 29094678 / 76619616 = 0.3797 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 16:30:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.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 16:30:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 16:30:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 16:30:49: 1000000 INFO @ Sat, 15 Jan 2022 16:30:54: 2000000 INFO @ Sat, 15 Jan 2022 16:30:59: 3000000 INFO @ Sat, 15 Jan 2022 16:31:04: 4000000 INFO @ Sat, 15 Jan 2022 16:31:09: 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 16:31:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.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 16:31:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 16:31:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 16:31:14: 6000000 INFO @ Sat, 15 Jan 2022 16:31:19: 1000000 INFO @ Sat, 15 Jan 2022 16:31:20: 7000000 INFO @ Sat, 15 Jan 2022 16:31:25: 2000000 INFO @ Sat, 15 Jan 2022 16:31:25: 8000000 INFO @ Sat, 15 Jan 2022 16:31:30: 3000000 INFO @ Sat, 15 Jan 2022 16:31:31: 9000000 INFO @ Sat, 15 Jan 2022 16:31:36: 4000000 INFO @ Sat, 15 Jan 2022 16:31:36: 10000000 INFO @ Sat, 15 Jan 2022 16:31:42: 5000000 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 16:31:42: 11000000 INFO @ Sat, 15 Jan 2022 16:31:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.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 16:31:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 16:31:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 16:31:47: 6000000 INFO @ Sat, 15 Jan 2022 16:31:48: 12000000 INFO @ Sat, 15 Jan 2022 16:31:49: 1000000 INFO @ Sat, 15 Jan 2022 16:31:53: 7000000 INFO @ Sat, 15 Jan 2022 16:31:54: 13000000 INFO @ Sat, 15 Jan 2022 16:31:55: 2000000 INFO @ Sat, 15 Jan 2022 16:31:59: 8000000 INFO @ Sat, 15 Jan 2022 16:31:59: 14000000 INFO @ Sat, 15 Jan 2022 16:32:00: 3000000 INFO @ Sat, 15 Jan 2022 16:32:04: 9000000 INFO @ Sat, 15 Jan 2022 16:32:05: 15000000 INFO @ Sat, 15 Jan 2022 16:32:06: 4000000 INFO @ Sat, 15 Jan 2022 16:32:10: 10000000 INFO @ Sat, 15 Jan 2022 16:32:11: 16000000 INFO @ Sat, 15 Jan 2022 16:32:12: 5000000 INFO @ Sat, 15 Jan 2022 16:32:16: 11000000 INFO @ Sat, 15 Jan 2022 16:32:16: 17000000 INFO @ Sat, 15 Jan 2022 16:32:17: 6000000 INFO @ Sat, 15 Jan 2022 16:32:21: 12000000 INFO @ Sat, 15 Jan 2022 16:32:22: 18000000 INFO @ Sat, 15 Jan 2022 16:32:23: 7000000 INFO @ Sat, 15 Jan 2022 16:32:27: 13000000 INFO @ Sat, 15 Jan 2022 16:32:28: 19000000 INFO @ Sat, 15 Jan 2022 16:32:29: 8000000 INFO @ Sat, 15 Jan 2022 16:32:33: 14000000 INFO @ Sat, 15 Jan 2022 16:32:33: 20000000 INFO @ Sat, 15 Jan 2022 16:32:34: 9000000 INFO @ Sat, 15 Jan 2022 16:32:38: 15000000 INFO @ Sat, 15 Jan 2022 16:32:39: 21000000 INFO @ Sat, 15 Jan 2022 16:32:40: 10000000 INFO @ Sat, 15 Jan 2022 16:32:44: 16000000 INFO @ Sat, 15 Jan 2022 16:32:45: 22000000 INFO @ Sat, 15 Jan 2022 16:32:46: 11000000 INFO @ Sat, 15 Jan 2022 16:32:50: 17000000 INFO @ Sat, 15 Jan 2022 16:32:50: 23000000 INFO @ Sat, 15 Jan 2022 16:32:51: 12000000 INFO @ Sat, 15 Jan 2022 16:32:55: 18000000 INFO @ Sat, 15 Jan 2022 16:32:56: 24000000 INFO @ Sat, 15 Jan 2022 16:32:57: 13000000 INFO @ Sat, 15 Jan 2022 16:33:01: 19000000 INFO @ Sat, 15 Jan 2022 16:33:02: 25000000 INFO @ Sat, 15 Jan 2022 16:33:03: 14000000 INFO @ Sat, 15 Jan 2022 16:33:07: 20000000 INFO @ Sat, 15 Jan 2022 16:33:07: 26000000 INFO @ Sat, 15 Jan 2022 16:33:09: 15000000 INFO @ Sat, 15 Jan 2022 16:33:13: 21000000 INFO @ Sat, 15 Jan 2022 16:33:13: 27000000 INFO @ Sat, 15 Jan 2022 16:33:15: 16000000 INFO @ Sat, 15 Jan 2022 16:33:19: 22000000 INFO @ Sat, 15 Jan 2022 16:33:20: 28000000 INFO @ Sat, 15 Jan 2022 16:33:21: 17000000 INFO @ Sat, 15 Jan 2022 16:33:25: 23000000 INFO @ Sat, 15 Jan 2022 16:33:26: 29000000 INFO @ Sat, 15 Jan 2022 16:33:27: 18000000 INFO @ Sat, 15 Jan 2022 16:33:31: 24000000 INFO @ Sat, 15 Jan 2022 16:33:31: 30000000 INFO @ Sat, 15 Jan 2022 16:33:33: 19000000 INFO @ Sat, 15 Jan 2022 16:33:37: 25000000 INFO @ Sat, 15 Jan 2022 16:33:37: 31000000 INFO @ Sat, 15 Jan 2022 16:33:39: 20000000 INFO @ Sat, 15 Jan 2022 16:33:43: 26000000 INFO @ Sat, 15 Jan 2022 16:33:43: 32000000 INFO @ Sat, 15 Jan 2022 16:33:45: 21000000 INFO @ Sat, 15 Jan 2022 16:33:48: 27000000 INFO @ Sat, 15 Jan 2022 16:33:49: 33000000 INFO @ Sat, 15 Jan 2022 16:33:51: 22000000 INFO @ Sat, 15 Jan 2022 16:33:54: 28000000 INFO @ Sat, 15 Jan 2022 16:33:55: 34000000 INFO @ Sat, 15 Jan 2022 16:33:56: 23000000 INFO @ Sat, 15 Jan 2022 16:34:00: 29000000 INFO @ Sat, 15 Jan 2022 16:34:01: 35000000 INFO @ Sat, 15 Jan 2022 16:34:02: 24000000 INFO @ Sat, 15 Jan 2022 16:34:06: 30000000 INFO @ Sat, 15 Jan 2022 16:34:07: 36000000 INFO @ Sat, 15 Jan 2022 16:34:08: 25000000 INFO @ Sat, 15 Jan 2022 16:34:12: 31000000 INFO @ Sat, 15 Jan 2022 16:34:13: 37000000 INFO @ Sat, 15 Jan 2022 16:34:14: 26000000 INFO @ Sat, 15 Jan 2022 16:34:18: 32000000 INFO @ Sat, 15 Jan 2022 16:34:18: 38000000 INFO @ Sat, 15 Jan 2022 16:34:20: 27000000 INFO @ Sat, 15 Jan 2022 16:34:23: 33000000 INFO @ Sat, 15 Jan 2022 16:34:24: 39000000 INFO @ Sat, 15 Jan 2022 16:34:26: 28000000 INFO @ Sat, 15 Jan 2022 16:34:29: 34000000 INFO @ Sat, 15 Jan 2022 16:34:30: 40000000 INFO @ Sat, 15 Jan 2022 16:34:31: 29000000 INFO @ Sat, 15 Jan 2022 16:34:35: 35000000 INFO @ Sat, 15 Jan 2022 16:34:36: 41000000 INFO @ Sat, 15 Jan 2022 16:34:37: 30000000 INFO @ Sat, 15 Jan 2022 16:34:41: 36000000 INFO @ Sat, 15 Jan 2022 16:34:42: 42000000 INFO @ Sat, 15 Jan 2022 16:34:43: 31000000 INFO @ Sat, 15 Jan 2022 16:34:47: 37000000 INFO @ Sat, 15 Jan 2022 16:34:48: 43000000 INFO @ Sat, 15 Jan 2022 16:34:49: 32000000 INFO @ Sat, 15 Jan 2022 16:34:52: 38000000 INFO @ Sat, 15 Jan 2022 16:34:53: 44000000 INFO @ Sat, 15 Jan 2022 16:34:55: 33000000 INFO @ Sat, 15 Jan 2022 16:34:58: 39000000 INFO @ Sat, 15 Jan 2022 16:34:59: 45000000 INFO @ Sat, 15 Jan 2022 16:35:00: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 16:35:04: 40000000 INFO @ Sat, 15 Jan 2022 16:35:05: 46000000 INFO @ Sat, 15 Jan 2022 16:35:06: 35000000 INFO @ Sat, 15 Jan 2022 16:35:10: 41000000 INFO @ Sat, 15 Jan 2022 16:35:11: 47000000 INFO @ Sat, 15 Jan 2022 16:35:12: 36000000 INFO @ Sat, 15 Jan 2022 16:35:14: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:35:14: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:35:14: #1 total tags in treatment: 47524938 INFO @ Sat, 15 Jan 2022 16:35:14: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:35:14: #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 16:35:15: #1 tags after filtering in treatment: 47524765 INFO @ Sat, 15 Jan 2022 16:35:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:35:15: #1 finished! INFO @ Sat, 15 Jan 2022 16:35:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:35:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:35:15: 42000000 INFO @ Sat, 15 Jan 2022 16:35:18: 37000000 INFO @ Sat, 15 Jan 2022 16:35:21: 43000000 INFO @ Sat, 15 Jan 2022 16:35:23: 38000000 INFO @ Sat, 15 Jan 2022 16:35:24: #2 number of paired peaks: 125874 INFO @ Sat, 15 Jan 2022 16:35:24: start model_add_line... INFO @ Sat, 15 Jan 2022 16:35:25: start X-correlation... INFO @ Sat, 15 Jan 2022 16:35:25: end of X-cor INFO @ Sat, 15 Jan 2022 16:35:25: #2 finished! INFO @ Sat, 15 Jan 2022 16:35:25: #2 predicted fragment length is 204 bps INFO @ Sat, 15 Jan 2022 16:35:25: #2 alternative fragment length(s) may be 204 bps INFO @ Sat, 15 Jan 2022 16:35:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_model.r INFO @ Sat, 15 Jan 2022 16:35:25: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:35:25: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 16:35:27: 44000000 INFO @ Sat, 15 Jan 2022 16:35:29: 39000000 INFO @ Sat, 15 Jan 2022 16:35:32: 45000000 INFO @ Sat, 15 Jan 2022 16:35:35: 40000000 INFO @ Sat, 15 Jan 2022 16:35:38: 46000000 INFO @ Sat, 15 Jan 2022 16:35:40: 41000000 INFO @ Sat, 15 Jan 2022 16:35:44: 47000000 INFO @ Sat, 15 Jan 2022 16:35:46: 42000000 INFO @ Sat, 15 Jan 2022 16:35:47: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:35:47: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:35:47: #1 total tags in treatment: 47524938 INFO @ Sat, 15 Jan 2022 16:35:47: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:35:47: #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 16:35:48: #1 tags after filtering in treatment: 47524765 INFO @ Sat, 15 Jan 2022 16:35:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:35:48: #1 finished! INFO @ Sat, 15 Jan 2022 16:35:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:35:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:35:52: 43000000 INFO @ Sat, 15 Jan 2022 16:35:57: #2 number of paired peaks: 125874 INFO @ Sat, 15 Jan 2022 16:35:57: start model_add_line... INFO @ Sat, 15 Jan 2022 16:35:57: 44000000 INFO @ Sat, 15 Jan 2022 16:35:58: start X-correlation... INFO @ Sat, 15 Jan 2022 16:35:58: end of X-cor INFO @ Sat, 15 Jan 2022 16:35:58: #2 finished! INFO @ Sat, 15 Jan 2022 16:35:58: #2 predicted fragment length is 204 bps INFO @ Sat, 15 Jan 2022 16:35:58: #2 alternative fragment length(s) may be 204 bps INFO @ Sat, 15 Jan 2022 16:35:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_model.r INFO @ Sat, 15 Jan 2022 16:35:58: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:35:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 16:36:02: 45000000 INFO @ Sat, 15 Jan 2022 16:36:08: 46000000 INFO @ Sat, 15 Jan 2022 16:36:13: 47000000 INFO @ Sat, 15 Jan 2022 16:36:16: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 16:36:16: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 16:36:16: #1 total tags in treatment: 47524938 INFO @ Sat, 15 Jan 2022 16:36:16: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 16:36:16: #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 16:36:17: #1 tags after filtering in treatment: 47524765 INFO @ Sat, 15 Jan 2022 16:36:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 16:36:17: #1 finished! INFO @ Sat, 15 Jan 2022 16:36:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 16:36:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 16:36:25: #2 number of paired peaks: 125874 INFO @ Sat, 15 Jan 2022 16:36:25: start model_add_line... INFO @ Sat, 15 Jan 2022 16:36:26: start X-correlation... INFO @ Sat, 15 Jan 2022 16:36:26: end of X-cor INFO @ Sat, 15 Jan 2022 16:36:26: #2 finished! INFO @ Sat, 15 Jan 2022 16:36:26: #2 predicted fragment length is 204 bps INFO @ Sat, 15 Jan 2022 16:36:26: #2 alternative fragment length(s) may be 204 bps INFO @ Sat, 15 Jan 2022 16:36:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_model.r INFO @ Sat, 15 Jan 2022 16:36:26: #3 Call peaks... INFO @ Sat, 15 Jan 2022 16:36:26: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 16:37:24: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:37:58: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:38:25: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 16:38:31: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_peaks.xls INFO @ Sat, 15 Jan 2022 16:38:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:38:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_summits.bed INFO @ Sat, 15 Jan 2022 16:38:32: Done! pass1 - making usageList (161 chroms): 9 millis pass2 - checking and writing primary data (62216 records, 4 fields): 119 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:39:04: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_peaks.xls INFO @ Sat, 15 Jan 2022 16:39:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:39:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_summits.bed INFO @ Sat, 15 Jan 2022 16:39:05: Done! pass1 - making usageList (139 chroms): 6 millis pass2 - checking and writing primary data (44198 records, 4 fields): 280 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 16:39:30: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_peaks.xls INFO @ Sat, 15 Jan 2022 16:39:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 16:39:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_summits.bed INFO @ Sat, 15 Jan 2022 16:39:30: Done! pass1 - making usageList (117 chroms): 5 millis pass2 - checking and writing primary data (28370 records, 4 fields): 55 millis CompletedMACS2peakCalling