Job ID = 14519067 SRX = ERX2745121 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 87739699 spots for ERR2731896/ERR2731896.sra Written 87739699 spots for ERR2731896/ERR2731896.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: 00:00:01 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:49:45 87739699 reads; of these: 87739699 (100.00%) were unpaired; of these: 3338263 (3.80%) aligned 0 times 72126486 (82.21%) aligned exactly 1 time 12274950 (13.99%) aligned >1 times 96.20% overall alignment rate Time searching: 00:49:47 Overall time: 00:49:47 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 36 files... [bam_rmdupse_core] 46489249 / 84401436 = 0.5508 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 15:41:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.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 15:41:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:41:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:41:28: 1000000 INFO @ Sat, 15 Jan 2022 15:41:38: 2000000 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 15:41:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.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 15:41:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:41:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:41:48: 3000000 INFO @ Sat, 15 Jan 2022 15:41:57: 1000000 INFO @ Sat, 15 Jan 2022 15:41:59: 4000000 INFO @ Sat, 15 Jan 2022 15:42:06: 2000000 INFO @ Sat, 15 Jan 2022 15:42:09: 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 15:42:15: 3000000 INFO @ Sat, 15 Jan 2022 15:42:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.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 15:42:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:42:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:42:20: 6000000 INFO @ Sat, 15 Jan 2022 15:42:25: 4000000 INFO @ Sat, 15 Jan 2022 15:42:30: 1000000 INFO @ Sat, 15 Jan 2022 15:42:31: 7000000 INFO @ Sat, 15 Jan 2022 15:42:35: 5000000 INFO @ Sat, 15 Jan 2022 15:42:42: 2000000 INFO @ Sat, 15 Jan 2022 15:42:42: 8000000 INFO @ Sat, 15 Jan 2022 15:42:45: 6000000 INFO @ Sat, 15 Jan 2022 15:42:53: 9000000 INFO @ Sat, 15 Jan 2022 15:42:53: 3000000 INFO @ Sat, 15 Jan 2022 15:42:54: 7000000 INFO @ Sat, 15 Jan 2022 15:43:04: 10000000 INFO @ Sat, 15 Jan 2022 15:43:04: 8000000 INFO @ Sat, 15 Jan 2022 15:43:05: 4000000 INFO @ Sat, 15 Jan 2022 15:43:15: 9000000 INFO @ Sat, 15 Jan 2022 15:43:15: 11000000 INFO @ Sat, 15 Jan 2022 15:43:17: 5000000 INFO @ Sat, 15 Jan 2022 15:43:25: 10000000 INFO @ Sat, 15 Jan 2022 15:43:26: 12000000 INFO @ Sat, 15 Jan 2022 15:43:29: 6000000 INFO @ Sat, 15 Jan 2022 15:43:35: 11000000 INFO @ Sat, 15 Jan 2022 15:43:37: 13000000 INFO @ Sat, 15 Jan 2022 15:43:41: 7000000 INFO @ Sat, 15 Jan 2022 15:43:45: 12000000 INFO @ Sat, 15 Jan 2022 15:43:48: 14000000 INFO @ Sat, 15 Jan 2022 15:43:53: 8000000 INFO @ Sat, 15 Jan 2022 15:43:55: 13000000 INFO @ Sat, 15 Jan 2022 15:43:58: 15000000 INFO @ Sat, 15 Jan 2022 15:44:05: 9000000 INFO @ Sat, 15 Jan 2022 15:44:06: 14000000 INFO @ Sat, 15 Jan 2022 15:44:09: 16000000 INFO @ Sat, 15 Jan 2022 15:44:16: 15000000 INFO @ Sat, 15 Jan 2022 15:44:17: 10000000 INFO @ Sat, 15 Jan 2022 15:44:20: 17000000 INFO @ Sat, 15 Jan 2022 15:44:25: 16000000 INFO @ Sat, 15 Jan 2022 15:44:29: 11000000 INFO @ Sat, 15 Jan 2022 15:44:32: 18000000 INFO @ Sat, 15 Jan 2022 15:44:35: 17000000 INFO @ Sat, 15 Jan 2022 15:44:41: 12000000 INFO @ Sat, 15 Jan 2022 15:44:43: 19000000 INFO @ Sat, 15 Jan 2022 15:44:46: 18000000 INFO @ Sat, 15 Jan 2022 15:44:54: 13000000 INFO @ Sat, 15 Jan 2022 15:44:54: 20000000 INFO @ Sat, 15 Jan 2022 15:44:56: 19000000 INFO @ Sat, 15 Jan 2022 15:45:05: 21000000 INFO @ Sat, 15 Jan 2022 15:45:06: 20000000 INFO @ Sat, 15 Jan 2022 15:45:06: 14000000 INFO @ Sat, 15 Jan 2022 15:45:16: 21000000 INFO @ Sat, 15 Jan 2022 15:45:16: 22000000 INFO @ Sat, 15 Jan 2022 15:45:18: 15000000 INFO @ Sat, 15 Jan 2022 15:45:26: 22000000 INFO @ Sat, 15 Jan 2022 15:45:28: 23000000 INFO @ Sat, 15 Jan 2022 15:45:31: 16000000 INFO @ Sat, 15 Jan 2022 15:45:36: 23000000 INFO @ Sat, 15 Jan 2022 15:45:38: 24000000 INFO @ Sat, 15 Jan 2022 15:45:43: 17000000 INFO @ Sat, 15 Jan 2022 15:45:46: 24000000 INFO @ Sat, 15 Jan 2022 15:45:50: 25000000 INFO @ Sat, 15 Jan 2022 15:45:56: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 15:45:57: 25000000 INFO @ Sat, 15 Jan 2022 15:46:01: 26000000 INFO @ Sat, 15 Jan 2022 15:46:07: 26000000 INFO @ Sat, 15 Jan 2022 15:46:08: 19000000 INFO @ Sat, 15 Jan 2022 15:46:12: 27000000 INFO @ Sat, 15 Jan 2022 15:46:17: 27000000 INFO @ Sat, 15 Jan 2022 15:46:21: 20000000 INFO @ Sat, 15 Jan 2022 15:46:22: 28000000 INFO @ Sat, 15 Jan 2022 15:46:27: 28000000 INFO @ Sat, 15 Jan 2022 15:46:33: 29000000 INFO @ Sat, 15 Jan 2022 15:46:33: 21000000 INFO @ Sat, 15 Jan 2022 15:46:37: 29000000 INFO @ Sat, 15 Jan 2022 15:46:44: 30000000 INFO @ Sat, 15 Jan 2022 15:46:45: 22000000 INFO @ Sat, 15 Jan 2022 15:46:46: 30000000 INFO @ Sat, 15 Jan 2022 15:46:54: 31000000 INFO @ Sat, 15 Jan 2022 15:46:55: 31000000 INFO @ Sat, 15 Jan 2022 15:46:57: 23000000 INFO @ Sat, 15 Jan 2022 15:47:05: 32000000 INFO @ Sat, 15 Jan 2022 15:47:05: 32000000 INFO @ Sat, 15 Jan 2022 15:47:08: 24000000 INFO @ Sat, 15 Jan 2022 15:47:14: 33000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:47:16: 33000000 INFO @ Sat, 15 Jan 2022 15:47:21: 25000000 INFO @ Sat, 15 Jan 2022 15:47:24: 34000000 INFO @ Sat, 15 Jan 2022 15:47:27: 34000000 INFO @ Sat, 15 Jan 2022 15:47:33: 26000000 INFO @ Sat, 15 Jan 2022 15:47:33: 35000000 INFO @ Sat, 15 Jan 2022 15:47:38: 35000000 INFO @ Sat, 15 Jan 2022 15:47:43: 36000000 INFO @ Sat, 15 Jan 2022 15:47:45: 27000000 INFO @ Sat, 15 Jan 2022 15:47:49: 36000000 INFO @ Sat, 15 Jan 2022 15:47:54: 37000000 INFO @ Sat, 15 Jan 2022 15:47:57: 28000000 INFO @ Sat, 15 Jan 2022 15:48:00: 37000000 INFO @ Sat, 15 Jan 2022 15:48:04: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:48:04: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:48:04: #1 total tags in treatment: 37912187 INFO @ Sat, 15 Jan 2022 15:48:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:48:04: #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 15:48:05: #1 tags after filtering in treatment: 37912066 INFO @ Sat, 15 Jan 2022 15:48:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:48:05: #1 finished! INFO @ Sat, 15 Jan 2022 15:48:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:48:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:48:09: 29000000 INFO @ Sat, 15 Jan 2022 15:48:10: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:48:10: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:48:10: #1 total tags in treatment: 37912187 INFO @ Sat, 15 Jan 2022 15:48:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:48:10: #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 15:48:11: #2 number of paired peaks: 34889 INFO @ Sat, 15 Jan 2022 15:48:11: start model_add_line... INFO @ Sat, 15 Jan 2022 15:48:11: #1 tags after filtering in treatment: 37912066 INFO @ Sat, 15 Jan 2022 15:48:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:48:11: #1 finished! INFO @ Sat, 15 Jan 2022 15:48:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:48:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:48:12: start X-correlation... INFO @ Sat, 15 Jan 2022 15:48:12: end of X-cor INFO @ Sat, 15 Jan 2022 15:48:12: #2 finished! INFO @ Sat, 15 Jan 2022 15:48:12: #2 predicted fragment length is 217 bps INFO @ Sat, 15 Jan 2022 15:48:12: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 15 Jan 2022 15:48:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10_model.r INFO @ Sat, 15 Jan 2022 15:48:12: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:48:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:48:18: #2 number of paired peaks: 34889 INFO @ Sat, 15 Jan 2022 15:48:18: start model_add_line... INFO @ Sat, 15 Jan 2022 15:48:19: start X-correlation... INFO @ Sat, 15 Jan 2022 15:48:19: end of X-cor INFO @ Sat, 15 Jan 2022 15:48:19: #2 finished! INFO @ Sat, 15 Jan 2022 15:48:19: #2 predicted fragment length is 217 bps INFO @ Sat, 15 Jan 2022 15:48:19: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 15 Jan 2022 15:48:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05_model.r INFO @ Sat, 15 Jan 2022 15:48:19: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:48:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:48:21: 30000000 INFO @ Sat, 15 Jan 2022 15:48:32: 31000000 INFO @ Sat, 15 Jan 2022 15:48:45: 32000000 INFO @ Sat, 15 Jan 2022 15:48:57: 33000000 INFO @ Sat, 15 Jan 2022 15:49:08: 34000000 INFO @ Sat, 15 Jan 2022 15:49:20: 35000000 INFO @ Sat, 15 Jan 2022 15:49:31: 36000000 INFO @ Sat, 15 Jan 2022 15:49:42: 37000000 INFO @ Sat, 15 Jan 2022 15:49:53: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:49:53: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:49:53: #1 total tags in treatment: 37912187 INFO @ Sat, 15 Jan 2022 15:49:53: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:49:53: #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 15:49:54: #1 tags after filtering in treatment: 37912066 INFO @ Sat, 15 Jan 2022 15:49:54: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:49:54: #1 finished! INFO @ Sat, 15 Jan 2022 15:49:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:49:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:50:01: #2 number of paired peaks: 34889 INFO @ Sat, 15 Jan 2022 15:50:01: start model_add_line... INFO @ Sat, 15 Jan 2022 15:50:01: start X-correlation... INFO @ Sat, 15 Jan 2022 15:50:01: end of X-cor INFO @ Sat, 15 Jan 2022 15:50:01: #2 finished! INFO @ Sat, 15 Jan 2022 15:50:01: #2 predicted fragment length is 217 bps INFO @ Sat, 15 Jan 2022 15:50:01: #2 alternative fragment length(s) may be 217 bps INFO @ Sat, 15 Jan 2022 15:50:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20_model.r INFO @ Sat, 15 Jan 2022 15:50:01: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:50:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:50:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:50:29: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:51:24: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10_peaks.xls INFO @ Sat, 15 Jan 2022 15:51:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:51:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.10_summits.bed INFO @ Sat, 15 Jan 2022 15:51:25: Done! pass1 - making usageList (133 chroms): 8 millis pass2 - checking and writing primary data (22342 records, 4 fields): 49 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:51:29: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:51:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:51:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.05_summits.bed INFO @ Sat, 15 Jan 2022 15:51:30: Done! pass1 - making usageList (142 chroms): 6 millis pass2 - checking and writing primary data (24860 records, 4 fields): 40 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:52:10: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:53:09: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20_peaks.xls INFO @ Sat, 15 Jan 2022 15:53:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:53:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745121/ERX2745121.20_summits.bed INFO @ Sat, 15 Jan 2022 15:53:10: Done! pass1 - making usageList (118 chroms): 5 millis pass2 - checking and writing primary data (19494 records, 4 fields): 57 millis CompletedMACS2peakCalling