Job ID = 10223546 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... 2020-10-15T17:43:26 prefetch.2.10.7: 1) Downloading 'ERR2731872'... 2020-10-15T17:43:26 prefetch.2.10.7: Downloading via HTTPS... 2020-10-15T17:45:20 prefetch.2.10.7: HTTPS download succeed 2020-10-15T17:45:20 prefetch.2.10.7: 1) 'ERR2731872' was downloaded successfully 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: 00:00:01 Time loading forward index: 00:00:04 Time loading mirror index: 00:00:02 Multiseed full-index search: 00:44:16 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: 00:44:23 Overall time: 00:44:23 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 03:44:11: # 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 @ Fri, 16 Oct 2020 03:44:11: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:44:11: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:44:16: 1000000 INFO @ Fri, 16 Oct 2020 03:44:21: 2000000 INFO @ Fri, 16 Oct 2020 03:44:26: 3000000 INFO @ Fri, 16 Oct 2020 03:44:30: 4000000 INFO @ Fri, 16 Oct 2020 03:44:35: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 03:44:40: 6000000 INFO @ Fri, 16 Oct 2020 03:44:41: # 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 @ Fri, 16 Oct 2020 03:44:41: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:44:41: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:44:45: 7000000 INFO @ Fri, 16 Oct 2020 03:44:46: 1000000 INFO @ Fri, 16 Oct 2020 03:44:51: 8000000 INFO @ Fri, 16 Oct 2020 03:44:52: 2000000 INFO @ Fri, 16 Oct 2020 03:44:56: 9000000 INFO @ Fri, 16 Oct 2020 03:44:57: 3000000 INFO @ Fri, 16 Oct 2020 03:45:01: 10000000 INFO @ Fri, 16 Oct 2020 03:45:02: 4000000 INFO @ Fri, 16 Oct 2020 03:45:07: 11000000 INFO @ Fri, 16 Oct 2020 03:45:08: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 03:45:11: # 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 @ Fri, 16 Oct 2020 03:45:11: #1 read tag files... INFO @ Fri, 16 Oct 2020 03:45:11: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 03:45:12: 12000000 INFO @ Fri, 16 Oct 2020 03:45:13: 6000000 INFO @ Fri, 16 Oct 2020 03:45:16: 1000000 INFO @ Fri, 16 Oct 2020 03:45:18: 13000000 INFO @ Fri, 16 Oct 2020 03:45:19: 7000000 INFO @ Fri, 16 Oct 2020 03:45:22: 2000000 INFO @ Fri, 16 Oct 2020 03:45:24: 14000000 INFO @ Fri, 16 Oct 2020 03:45:24: 8000000 INFO @ Fri, 16 Oct 2020 03:45:28: 3000000 INFO @ Fri, 16 Oct 2020 03:45:29: 15000000 INFO @ Fri, 16 Oct 2020 03:45:30: 9000000 INFO @ Fri, 16 Oct 2020 03:45:33: 4000000 INFO @ Fri, 16 Oct 2020 03:45:35: 16000000 INFO @ Fri, 16 Oct 2020 03:45:36: 10000000 INFO @ Fri, 16 Oct 2020 03:45:39: 5000000 INFO @ Fri, 16 Oct 2020 03:45:41: 17000000 INFO @ Fri, 16 Oct 2020 03:45:41: 11000000 INFO @ Fri, 16 Oct 2020 03:45:45: 6000000 INFO @ Fri, 16 Oct 2020 03:45:46: 18000000 INFO @ Fri, 16 Oct 2020 03:45:47: 12000000 INFO @ Fri, 16 Oct 2020 03:45:50: 7000000 INFO @ Fri, 16 Oct 2020 03:45:52: 19000000 INFO @ Fri, 16 Oct 2020 03:45:53: 13000000 INFO @ Fri, 16 Oct 2020 03:45:56: 8000000 INFO @ Fri, 16 Oct 2020 03:45:58: 20000000 INFO @ Fri, 16 Oct 2020 03:45:58: 14000000 INFO @ Fri, 16 Oct 2020 03:46:01: 9000000 INFO @ Fri, 16 Oct 2020 03:46:03: 21000000 INFO @ Fri, 16 Oct 2020 03:46:04: 15000000 INFO @ Fri, 16 Oct 2020 03:46:07: 10000000 INFO @ Fri, 16 Oct 2020 03:46:09: 22000000 INFO @ Fri, 16 Oct 2020 03:46:09: 16000000 INFO @ Fri, 16 Oct 2020 03:46:13: 11000000 INFO @ Fri, 16 Oct 2020 03:46:15: 23000000 INFO @ Fri, 16 Oct 2020 03:46:15: 17000000 INFO @ Fri, 16 Oct 2020 03:46:19: 12000000 INFO @ Fri, 16 Oct 2020 03:46:21: 24000000 INFO @ Fri, 16 Oct 2020 03:46:21: 18000000 INFO @ Fri, 16 Oct 2020 03:46:24: 13000000 INFO @ Fri, 16 Oct 2020 03:46:26: 25000000 INFO @ Fri, 16 Oct 2020 03:46:27: 19000000 INFO @ Fri, 16 Oct 2020 03:46:30: 14000000 INFO @ Fri, 16 Oct 2020 03:46:32: 26000000 INFO @ Fri, 16 Oct 2020 03:46:32: 20000000 INFO @ Fri, 16 Oct 2020 03:46:36: 15000000 INFO @ Fri, 16 Oct 2020 03:46:38: 27000000 INFO @ Fri, 16 Oct 2020 03:46:38: 21000000 INFO @ Fri, 16 Oct 2020 03:46:42: 16000000 INFO @ Fri, 16 Oct 2020 03:46:44: 28000000 INFO @ Fri, 16 Oct 2020 03:46:44: 22000000 INFO @ Fri, 16 Oct 2020 03:46:48: 17000000 INFO @ Fri, 16 Oct 2020 03:46:49: 23000000 INFO @ Fri, 16 Oct 2020 03:46:50: 29000000 INFO @ Fri, 16 Oct 2020 03:46:54: 18000000 INFO @ Fri, 16 Oct 2020 03:46:55: 24000000 INFO @ Fri, 16 Oct 2020 03:46:55: 30000000 INFO @ Fri, 16 Oct 2020 03:46:59: 19000000 INFO @ Fri, 16 Oct 2020 03:47:01: 25000000 INFO @ Fri, 16 Oct 2020 03:47:01: 31000000 INFO @ Fri, 16 Oct 2020 03:47:05: 20000000 INFO @ Fri, 16 Oct 2020 03:47:06: 26000000 INFO @ Fri, 16 Oct 2020 03:47:07: 32000000 INFO @ Fri, 16 Oct 2020 03:47:11: 21000000 INFO @ Fri, 16 Oct 2020 03:47:12: 27000000 INFO @ Fri, 16 Oct 2020 03:47:12: 33000000 INFO @ Fri, 16 Oct 2020 03:47:17: 22000000 INFO @ Fri, 16 Oct 2020 03:47:17: 28000000 INFO @ Fri, 16 Oct 2020 03:47:18: 34000000 INFO @ Fri, 16 Oct 2020 03:47:22: 23000000 INFO @ Fri, 16 Oct 2020 03:47:23: 29000000 INFO @ Fri, 16 Oct 2020 03:47:24: 35000000 INFO @ Fri, 16 Oct 2020 03:47:28: 24000000 INFO @ Fri, 16 Oct 2020 03:47:29: 30000000 INFO @ Fri, 16 Oct 2020 03:47:30: 36000000 INFO @ Fri, 16 Oct 2020 03:47:34: 25000000 INFO @ Fri, 16 Oct 2020 03:47:34: 31000000 INFO @ Fri, 16 Oct 2020 03:47:35: 37000000 INFO @ Fri, 16 Oct 2020 03:47:40: 26000000 INFO @ Fri, 16 Oct 2020 03:47:40: 32000000 INFO @ Fri, 16 Oct 2020 03:47:41: 38000000 INFO @ Fri, 16 Oct 2020 03:47:45: 27000000 INFO @ Fri, 16 Oct 2020 03:47:46: 33000000 INFO @ Fri, 16 Oct 2020 03:47:47: 39000000 INFO @ Fri, 16 Oct 2020 03:47:51: 28000000 INFO @ Fri, 16 Oct 2020 03:47:51: 34000000 INFO @ Fri, 16 Oct 2020 03:47:53: 40000000 INFO @ Fri, 16 Oct 2020 03:47:57: 29000000 INFO @ Fri, 16 Oct 2020 03:47:57: 35000000 INFO @ Fri, 16 Oct 2020 03:47:58: 41000000 INFO @ Fri, 16 Oct 2020 03:48:03: 30000000 INFO @ Fri, 16 Oct 2020 03:48:03: 36000000 INFO @ Fri, 16 Oct 2020 03:48:04: 42000000 INFO @ Fri, 16 Oct 2020 03:48:08: 31000000 INFO @ Fri, 16 Oct 2020 03:48:08: 37000000 INFO @ Fri, 16 Oct 2020 03:48:10: 43000000 INFO @ Fri, 16 Oct 2020 03:48:14: 32000000 INFO @ Fri, 16 Oct 2020 03:48:14: 38000000 INFO @ Fri, 16 Oct 2020 03:48:16: 44000000 INFO @ Fri, 16 Oct 2020 03:48:20: 33000000 INFO @ Fri, 16 Oct 2020 03:48:20: 39000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 03:48:21: 45000000 INFO @ Fri, 16 Oct 2020 03:48:25: 34000000 INFO @ Fri, 16 Oct 2020 03:48:25: 40000000 INFO @ Fri, 16 Oct 2020 03:48:27: 46000000 INFO @ Fri, 16 Oct 2020 03:48:31: 35000000 INFO @ Fri, 16 Oct 2020 03:48:31: 41000000 INFO @ Fri, 16 Oct 2020 03:48:33: 47000000 INFO @ Fri, 16 Oct 2020 03:48:36: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 03:48:36: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 03:48:36: #1 total tags in treatment: 47524938 INFO @ Fri, 16 Oct 2020 03:48:36: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 03:48:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 03:48:37: 42000000 INFO @ Fri, 16 Oct 2020 03:48:37: 36000000 INFO @ Fri, 16 Oct 2020 03:48:37: #1 tags after filtering in treatment: 47524765 INFO @ Fri, 16 Oct 2020 03:48:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 03:48:37: #1 finished! INFO @ Fri, 16 Oct 2020 03:48:37: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 03:48:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 03:48:42: 37000000 INFO @ Fri, 16 Oct 2020 03:48:42: 43000000 INFO @ Fri, 16 Oct 2020 03:48:46: #2 number of paired peaks: 125874 INFO @ Fri, 16 Oct 2020 03:48:46: start model_add_line... INFO @ Fri, 16 Oct 2020 03:48:47: start X-correlation... INFO @ Fri, 16 Oct 2020 03:48:47: end of X-cor INFO @ Fri, 16 Oct 2020 03:48:47: #2 finished! INFO @ Fri, 16 Oct 2020 03:48:47: #2 predicted fragment length is 204 bps INFO @ Fri, 16 Oct 2020 03:48:47: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 16 Oct 2020 03:48:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_model.r INFO @ Fri, 16 Oct 2020 03:48:47: #3 Call peaks... INFO @ Fri, 16 Oct 2020 03:48:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 03:48:48: 38000000 INFO @ Fri, 16 Oct 2020 03:48:48: 44000000 INFO @ Fri, 16 Oct 2020 03:48:53: 39000000 INFO @ Fri, 16 Oct 2020 03:48:53: 45000000 INFO @ Fri, 16 Oct 2020 03:48:59: 40000000 INFO @ Fri, 16 Oct 2020 03:48:59: 46000000 INFO @ Fri, 16 Oct 2020 03:49:04: 41000000 INFO @ Fri, 16 Oct 2020 03:49:05: 47000000 INFO @ Fri, 16 Oct 2020 03:49:08: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 03:49:08: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 03:49:08: #1 total tags in treatment: 47524938 INFO @ Fri, 16 Oct 2020 03:49:08: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 03:49:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 03:49:09: #1 tags after filtering in treatment: 47524765 INFO @ Fri, 16 Oct 2020 03:49:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 03:49:09: #1 finished! INFO @ Fri, 16 Oct 2020 03:49:09: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 03:49:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 03:49:10: 42000000 INFO @ Fri, 16 Oct 2020 03:49:15: 43000000 INFO @ Fri, 16 Oct 2020 03:49:17: #2 number of paired peaks: 125874 INFO @ Fri, 16 Oct 2020 03:49:17: start model_add_line... INFO @ Fri, 16 Oct 2020 03:49:18: start X-correlation... INFO @ Fri, 16 Oct 2020 03:49:18: end of X-cor INFO @ Fri, 16 Oct 2020 03:49:18: #2 finished! INFO @ Fri, 16 Oct 2020 03:49:18: #2 predicted fragment length is 204 bps INFO @ Fri, 16 Oct 2020 03:49:18: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 16 Oct 2020 03:49:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_model.r INFO @ Fri, 16 Oct 2020 03:49:18: #3 Call peaks... INFO @ Fri, 16 Oct 2020 03:49:18: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 16 Oct 2020 03:49:20: 44000000 INFO @ Fri, 16 Oct 2020 03:49:26: 45000000 INFO @ Fri, 16 Oct 2020 03:49:31: 46000000 INFO @ Fri, 16 Oct 2020 03:49:36: 47000000 INFO @ Fri, 16 Oct 2020 03:49:39: #1 tag size is determined as 50 bps INFO @ Fri, 16 Oct 2020 03:49:39: #1 tag size = 50 INFO @ Fri, 16 Oct 2020 03:49:39: #1 total tags in treatment: 47524938 INFO @ Fri, 16 Oct 2020 03:49:39: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 03:49:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 03:49:40: #1 tags after filtering in treatment: 47524765 INFO @ Fri, 16 Oct 2020 03:49:40: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 16 Oct 2020 03:49:40: #1 finished! INFO @ Fri, 16 Oct 2020 03:49:40: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 03:49:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 03:49:49: #2 number of paired peaks: 125874 INFO @ Fri, 16 Oct 2020 03:49:49: start model_add_line... INFO @ Fri, 16 Oct 2020 03:49:50: start X-correlation... INFO @ Fri, 16 Oct 2020 03:49:50: end of X-cor INFO @ Fri, 16 Oct 2020 03:49:50: #2 finished! INFO @ Fri, 16 Oct 2020 03:49:50: #2 predicted fragment length is 204 bps INFO @ Fri, 16 Oct 2020 03:49:50: #2 alternative fragment length(s) may be 204 bps INFO @ Fri, 16 Oct 2020 03:49:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_model.r INFO @ Fri, 16 Oct 2020 03:49:50: #3 Call peaks... INFO @ Fri, 16 Oct 2020 03:49:50: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 03:50:44: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 03:51:17: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 03:51:46: #3 Call peaks for each chromosome... INFO @ Fri, 16 Oct 2020 03:51:49: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_peaks.xls INFO @ Fri, 16 Oct 2020 03:51:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 03:51:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.05_summits.bed INFO @ Fri, 16 Oct 2020 03:51:50: Done! pass1 - making usageList (161 chroms): 8 millis pass2 - checking and writing primary data (62216 records, 4 fields): 59 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 03:52:20: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_peaks.xls INFO @ Fri, 16 Oct 2020 03:52:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 03:52:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.10_summits.bed INFO @ Fri, 16 Oct 2020 03:52:20: Done! pass1 - making usageList (139 chroms): 6 millis pass2 - checking and writing primary data (44198 records, 4 fields): 42 millis CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 03:52:48: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_peaks.xls INFO @ Fri, 16 Oct 2020 03:52:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_peaks.narrowPeak INFO @ Fri, 16 Oct 2020 03:52:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745097/ERX2745097.20_summits.bed INFO @ Fri, 16 Oct 2020 03:52:49: Done! pass1 - making usageList (117 chroms): 4 millis pass2 - checking and writing primary data (28370 records, 4 fields): 29 millis CompletedMACS2peakCalling