Job ID = 14519434 SRX = ERX2745126 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 71731353 spots for ERR2731901/ERR2731901.sra Written 71731353 spots for ERR2731901/ERR2731901.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: 00:00:01 Multiseed full-index search: 00:44:56 71731353 reads; of these: 71731353 (100.00%) were unpaired; of these: 3333153 (4.65%) aligned 0 times 56540630 (78.82%) aligned exactly 1 time 11857570 (16.53%) aligned >1 times 95.35% overall alignment rate Time searching: 00:45:00 Overall time: 00:45:00 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 28 files... [bam_rmdupse_core] 38429580 / 68398200 = 0.5619 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 15:36:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.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 15:36:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:36:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:36:51: 1000000 INFO @ Sat, 15 Jan 2022 15:36:58: 2000000 INFO @ Sat, 15 Jan 2022 15:37:06: 3000000 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 15:37:13: 4000000 INFO @ Sat, 15 Jan 2022 15:37:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.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 15:37:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:37:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:37:21: 5000000 INFO @ Sat, 15 Jan 2022 15:37:21: 1000000 INFO @ Sat, 15 Jan 2022 15:37:28: 6000000 INFO @ Sat, 15 Jan 2022 15:37:28: 2000000 INFO @ Sat, 15 Jan 2022 15:37:36: 7000000 INFO @ Sat, 15 Jan 2022 15:37:36: 3000000 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 15:37:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.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 15:37:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 15:37:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 15:37:43: 8000000 INFO @ Sat, 15 Jan 2022 15:37:44: 4000000 INFO @ Sat, 15 Jan 2022 15:37:51: 1000000 INFO @ Sat, 15 Jan 2022 15:37:51: 9000000 INFO @ Sat, 15 Jan 2022 15:37:52: 5000000 INFO @ Sat, 15 Jan 2022 15:37:59: 2000000 INFO @ Sat, 15 Jan 2022 15:37:59: 10000000 INFO @ Sat, 15 Jan 2022 15:38:00: 6000000 INFO @ Sat, 15 Jan 2022 15:38:06: 11000000 INFO @ Sat, 15 Jan 2022 15:38:06: 3000000 INFO @ Sat, 15 Jan 2022 15:38:08: 7000000 INFO @ Sat, 15 Jan 2022 15:38:14: 12000000 INFO @ Sat, 15 Jan 2022 15:38:14: 4000000 INFO @ Sat, 15 Jan 2022 15:38:15: 8000000 INFO @ Sat, 15 Jan 2022 15:38:22: 13000000 INFO @ Sat, 15 Jan 2022 15:38:22: 5000000 INFO @ Sat, 15 Jan 2022 15:38:23: 9000000 INFO @ Sat, 15 Jan 2022 15:38:29: 14000000 INFO @ Sat, 15 Jan 2022 15:38:30: 6000000 INFO @ Sat, 15 Jan 2022 15:38:31: 10000000 INFO @ Sat, 15 Jan 2022 15:38:37: 15000000 INFO @ Sat, 15 Jan 2022 15:38:38: 7000000 INFO @ Sat, 15 Jan 2022 15:38:39: 11000000 INFO @ Sat, 15 Jan 2022 15:38:44: 16000000 INFO @ Sat, 15 Jan 2022 15:38:45: 8000000 INFO @ Sat, 15 Jan 2022 15:38:46: 12000000 INFO @ Sat, 15 Jan 2022 15:38:52: 17000000 INFO @ Sat, 15 Jan 2022 15:38:53: 9000000 INFO @ Sat, 15 Jan 2022 15:38:54: 13000000 INFO @ Sat, 15 Jan 2022 15:39:00: 18000000 INFO @ Sat, 15 Jan 2022 15:39:01: 10000000 INFO @ Sat, 15 Jan 2022 15:39:02: 14000000 INFO @ Sat, 15 Jan 2022 15:39:08: 19000000 INFO @ Sat, 15 Jan 2022 15:39:08: 11000000 INFO @ Sat, 15 Jan 2022 15:39:09: 15000000 INFO @ Sat, 15 Jan 2022 15:39:16: 20000000 INFO @ Sat, 15 Jan 2022 15:39:16: 12000000 INFO @ Sat, 15 Jan 2022 15:39:17: 16000000 INFO @ Sat, 15 Jan 2022 15:39:23: 13000000 INFO @ Sat, 15 Jan 2022 15:39:23: 21000000 INFO @ Sat, 15 Jan 2022 15:39:24: 17000000 INFO @ Sat, 15 Jan 2022 15:39:31: 14000000 INFO @ Sat, 15 Jan 2022 15:39:31: 22000000 INFO @ Sat, 15 Jan 2022 15:39:32: 18000000 INFO @ Sat, 15 Jan 2022 15:39:38: 15000000 INFO @ Sat, 15 Jan 2022 15:39:39: 23000000 INFO @ Sat, 15 Jan 2022 15:39:40: 19000000 INFO @ Sat, 15 Jan 2022 15:39:46: 16000000 INFO @ Sat, 15 Jan 2022 15:39:47: 24000000 INFO @ Sat, 15 Jan 2022 15:39:48: 20000000 INFO @ Sat, 15 Jan 2022 15:39:53: 17000000 INFO @ Sat, 15 Jan 2022 15:39:55: 25000000 INFO @ Sat, 15 Jan 2022 15:39:56: 21000000 INFO @ Sat, 15 Jan 2022 15:40:01: 18000000 INFO @ Sat, 15 Jan 2022 15:40:02: 26000000 INFO @ Sat, 15 Jan 2022 15:40:03: 22000000 INFO @ Sat, 15 Jan 2022 15:40:09: 19000000 INFO @ Sat, 15 Jan 2022 15:40:10: 27000000 INFO @ Sat, 15 Jan 2022 15:40:11: 23000000 INFO @ Sat, 15 Jan 2022 15:40:17: 20000000 INFO @ Sat, 15 Jan 2022 15:40:18: 28000000 INFO @ Sat, 15 Jan 2022 15:40:19: 24000000 INFO @ Sat, 15 Jan 2022 15:40:24: 21000000 INFO @ Sat, 15 Jan 2022 15:40:26: 29000000 INFO @ Sat, 15 Jan 2022 15:40:27: 25000000 INFO @ Sat, 15 Jan 2022 15:40:33: 22000000 INFO @ Sat, 15 Jan 2022 15:40:34: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:40:34: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:40:34: #1 total tags in treatment: 29968620 INFO @ Sat, 15 Jan 2022 15:40:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:40:34: #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 15:40:35: #1 tags after filtering in treatment: 29968503 INFO @ Sat, 15 Jan 2022 15:40:35: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:40:35: #1 finished! INFO @ Sat, 15 Jan 2022 15:40:35: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:40:35: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:40:35: 26000000 INFO @ Sat, 15 Jan 2022 15:40:39: #2 number of paired peaks: 32821 INFO @ Sat, 15 Jan 2022 15:40:39: start model_add_line... INFO @ Sat, 15 Jan 2022 15:40:39: start X-correlation... INFO @ Sat, 15 Jan 2022 15:40:39: end of X-cor INFO @ Sat, 15 Jan 2022 15:40:39: #2 finished! INFO @ Sat, 15 Jan 2022 15:40:39: #2 predicted fragment length is 233 bps INFO @ Sat, 15 Jan 2022 15:40:39: #2 alternative fragment length(s) may be 233 bps INFO @ Sat, 15 Jan 2022 15:40:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05_model.r INFO @ Sat, 15 Jan 2022 15:40:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:40:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:40:40: 23000000 INFO @ Sat, 15 Jan 2022 15:40:42: 27000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 15:40:48: 24000000 INFO @ Sat, 15 Jan 2022 15:40:50: 28000000 INFO @ Sat, 15 Jan 2022 15:40:56: 25000000 INFO @ Sat, 15 Jan 2022 15:40:58: 29000000 INFO @ Sat, 15 Jan 2022 15:41:04: 26000000 INFO @ Sat, 15 Jan 2022 15:41:06: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:41:06: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:41:06: #1 total tags in treatment: 29968620 INFO @ Sat, 15 Jan 2022 15:41:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:41:06: #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 15:41:07: #1 tags after filtering in treatment: 29968503 INFO @ Sat, 15 Jan 2022 15:41:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:41:07: #1 finished! INFO @ Sat, 15 Jan 2022 15:41:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:41:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:41:11: #2 number of paired peaks: 32821 INFO @ Sat, 15 Jan 2022 15:41:11: start model_add_line... INFO @ Sat, 15 Jan 2022 15:41:11: 27000000 INFO @ Sat, 15 Jan 2022 15:41:11: start X-correlation... INFO @ Sat, 15 Jan 2022 15:41:11: end of X-cor INFO @ Sat, 15 Jan 2022 15:41:11: #2 finished! INFO @ Sat, 15 Jan 2022 15:41:11: #2 predicted fragment length is 233 bps INFO @ Sat, 15 Jan 2022 15:41:11: #2 alternative fragment length(s) may be 233 bps INFO @ Sat, 15 Jan 2022 15:41:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10_model.r INFO @ Sat, 15 Jan 2022 15:41:11: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:41:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 15:41:18: 28000000 INFO @ Sat, 15 Jan 2022 15:41:26: 29000000 INFO @ Sat, 15 Jan 2022 15:41:34: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 15:41:34: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 15:41:34: #1 total tags in treatment: 29968620 INFO @ Sat, 15 Jan 2022 15:41:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 15:41:34: #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 15:41:34: #1 tags after filtering in treatment: 29968503 INFO @ Sat, 15 Jan 2022 15:41:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 15:41:34: #1 finished! INFO @ Sat, 15 Jan 2022 15:41:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 15:41:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 15:41:38: #2 number of paired peaks: 32821 INFO @ Sat, 15 Jan 2022 15:41:38: start model_add_line... INFO @ Sat, 15 Jan 2022 15:41:39: start X-correlation... INFO @ Sat, 15 Jan 2022 15:41:39: end of X-cor INFO @ Sat, 15 Jan 2022 15:41:39: #2 finished! INFO @ Sat, 15 Jan 2022 15:41:39: #2 predicted fragment length is 233 bps INFO @ Sat, 15 Jan 2022 15:41:39: #2 alternative fragment length(s) may be 233 bps INFO @ Sat, 15 Jan 2022 15:41:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20_model.r INFO @ Sat, 15 Jan 2022 15:41:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 15:41:39: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 15:41:55: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:42:26: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:42:35: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05_peaks.xls INFO @ Sat, 15 Jan 2022 15:42:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:42:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.05_summits.bed INFO @ Sat, 15 Jan 2022 15:42:36: Done! pass1 - making usageList (132 chroms): 4 millis pass2 - checking and writing primary data (20069 records, 4 fields): 34 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:42:54: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 15:43:07: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10_peaks.xls INFO @ Sat, 15 Jan 2022 15:43:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:43:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.10_summits.bed INFO @ Sat, 15 Jan 2022 15:43:07: Done! pass1 - making usageList (123 chroms): 4 millis pass2 - checking and writing primary data (18247 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 15:43:34: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20_peaks.xls INFO @ Sat, 15 Jan 2022 15:43:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 15:43:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/ERX2745126/ERX2745126.20_summits.bed INFO @ Sat, 15 Jan 2022 15:43:34: Done! pass1 - making usageList (103 chroms): 3 millis pass2 - checking and writing primary data (16150 records, 4 fields): 27 millis CompletedMACS2peakCalling