Job ID = 14519577 SRX = SRX9963496 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 35228496 spots for SRR13565210/SRR13565210.sra Written 35228496 spots for SRR13565210/SRR13565210.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: 00:50:05 35228496 reads; of these: 35228496 (100.00%) were unpaired; of these: 2295043 (6.51%) aligned 0 times 29515647 (83.78%) aligned exactly 1 time 3417806 (9.70%) aligned >1 times 93.49% overall alignment rate Time searching: 00:50:09 Overall time: 00:50:09 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] 6084958 / 32933453 = 0.1848 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 17:21:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.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 17:21:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:21:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:22:00: 1000000 INFO @ Sat, 15 Jan 2022 17:22:07: 2000000 INFO @ Sat, 15 Jan 2022 17:22:13: 3000000 INFO @ Sat, 15 Jan 2022 17:22:20: 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 17:22:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.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 17:22:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:22:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:22:27: 5000000 INFO @ Sat, 15 Jan 2022 17:22:29: 1000000 INFO @ Sat, 15 Jan 2022 17:22:33: 6000000 INFO @ Sat, 15 Jan 2022 17:22:37: 2000000 INFO @ Sat, 15 Jan 2022 17:22:40: 7000000 INFO @ Sat, 15 Jan 2022 17:22:43: 3000000 INFO @ Sat, 15 Jan 2022 17:22:47: 8000000 INFO @ Sat, 15 Jan 2022 17:22:50: 4000000 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 17:22:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.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 17:22:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:22:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:22:53: 9000000 INFO @ Sat, 15 Jan 2022 17:22:57: 5000000 INFO @ Sat, 15 Jan 2022 17:23:00: 1000000 INFO @ Sat, 15 Jan 2022 17:23:01: 10000000 INFO @ Sat, 15 Jan 2022 17:23:04: 6000000 INFO @ Sat, 15 Jan 2022 17:23:07: 2000000 INFO @ Sat, 15 Jan 2022 17:23:08: 11000000 INFO @ Sat, 15 Jan 2022 17:23:11: 7000000 INFO @ Sat, 15 Jan 2022 17:23:14: 3000000 INFO @ Sat, 15 Jan 2022 17:23:15: 12000000 INFO @ Sat, 15 Jan 2022 17:23:18: 8000000 INFO @ Sat, 15 Jan 2022 17:23:22: 4000000 INFO @ Sat, 15 Jan 2022 17:23:22: 13000000 INFO @ Sat, 15 Jan 2022 17:23:26: 9000000 INFO @ Sat, 15 Jan 2022 17:23:28: 5000000 INFO @ Sat, 15 Jan 2022 17:23:29: 14000000 INFO @ Sat, 15 Jan 2022 17:23:33: 10000000 INFO @ Sat, 15 Jan 2022 17:23:35: 6000000 INFO @ Sat, 15 Jan 2022 17:23:36: 15000000 INFO @ Sat, 15 Jan 2022 17:23:40: 11000000 INFO @ Sat, 15 Jan 2022 17:23:42: 7000000 INFO @ Sat, 15 Jan 2022 17:23:43: 16000000 INFO @ Sat, 15 Jan 2022 17:23:47: 12000000 INFO @ Sat, 15 Jan 2022 17:23:49: 8000000 INFO @ Sat, 15 Jan 2022 17:23:50: 17000000 INFO @ Sat, 15 Jan 2022 17:23:54: 13000000 INFO @ Sat, 15 Jan 2022 17:23:56: 9000000 INFO @ Sat, 15 Jan 2022 17:23:57: 18000000 INFO @ Sat, 15 Jan 2022 17:24:02: 14000000 INFO @ Sat, 15 Jan 2022 17:24:03: 10000000 INFO @ Sat, 15 Jan 2022 17:24:04: 19000000 INFO @ Sat, 15 Jan 2022 17:24:09: 15000000 INFO @ Sat, 15 Jan 2022 17:24:10: 11000000 INFO @ Sat, 15 Jan 2022 17:24:11: 20000000 INFO @ Sat, 15 Jan 2022 17:24:16: 16000000 INFO @ Sat, 15 Jan 2022 17:24:17: 12000000 INFO @ Sat, 15 Jan 2022 17:24:18: 21000000 INFO @ Sat, 15 Jan 2022 17:24:23: 17000000 INFO @ Sat, 15 Jan 2022 17:24:24: 13000000 INFO @ Sat, 15 Jan 2022 17:24:25: 22000000 INFO @ Sat, 15 Jan 2022 17:24:30: 18000000 INFO @ Sat, 15 Jan 2022 17:24:31: 14000000 INFO @ Sat, 15 Jan 2022 17:24:32: 23000000 INFO @ Sat, 15 Jan 2022 17:24:37: 19000000 INFO @ Sat, 15 Jan 2022 17:24:38: 15000000 INFO @ Sat, 15 Jan 2022 17:24:39: 24000000 INFO @ Sat, 15 Jan 2022 17:24:44: 20000000 INFO @ Sat, 15 Jan 2022 17:24:45: 16000000 INFO @ Sat, 15 Jan 2022 17:24:46: 25000000 INFO @ Sat, 15 Jan 2022 17:24:51: 21000000 INFO @ Sat, 15 Jan 2022 17:24:51: 17000000 INFO @ Sat, 15 Jan 2022 17:24:53: 26000000 INFO @ Sat, 15 Jan 2022 17:24:57: 22000000 INFO @ Sat, 15 Jan 2022 17:24:58: 18000000 INFO @ Sat, 15 Jan 2022 17:24:59: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:24:59: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:24:59: #1 total tags in treatment: 26848495 INFO @ Sat, 15 Jan 2022 17:24:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:24:59: #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 17:25:00: #1 tags after filtering in treatment: 26848277 INFO @ Sat, 15 Jan 2022 17:25:00: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:25:00: #1 finished! INFO @ Sat, 15 Jan 2022 17:25:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:25:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:25:04: 23000000 INFO @ Sat, 15 Jan 2022 17:25:05: #2 number of paired peaks: 93137 INFO @ Sat, 15 Jan 2022 17:25:05: start model_add_line... INFO @ Sat, 15 Jan 2022 17:25:05: 19000000 INFO @ Sat, 15 Jan 2022 17:25:05: start X-correlation... INFO @ Sat, 15 Jan 2022 17:25:06: end of X-cor INFO @ Sat, 15 Jan 2022 17:25:06: #2 finished! INFO @ Sat, 15 Jan 2022 17:25:06: #2 predicted fragment length is 202 bps INFO @ Sat, 15 Jan 2022 17:25:06: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 15 Jan 2022 17:25:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05_model.r INFO @ Sat, 15 Jan 2022 17:25:06: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:25:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:25:11: 24000000 INFO @ Sat, 15 Jan 2022 17:25:12: 20000000 INFO @ Sat, 15 Jan 2022 17:25:18: 25000000 INFO @ Sat, 15 Jan 2022 17:25:19: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:25:24: 26000000 INFO @ Sat, 15 Jan 2022 17:25:25: 22000000 INFO @ Sat, 15 Jan 2022 17:25:30: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:25:30: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:25:30: #1 total tags in treatment: 26848495 INFO @ Sat, 15 Jan 2022 17:25:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:25:30: #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 17:25:31: #1 tags after filtering in treatment: 26848277 INFO @ Sat, 15 Jan 2022 17:25:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:25:31: #1 finished! INFO @ Sat, 15 Jan 2022 17:25:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:25:32: 23000000 INFO @ Sat, 15 Jan 2022 17:25:36: #2 number of paired peaks: 93137 INFO @ Sat, 15 Jan 2022 17:25:36: start model_add_line... INFO @ Sat, 15 Jan 2022 17:25:37: start X-correlation... INFO @ Sat, 15 Jan 2022 17:25:37: end of X-cor INFO @ Sat, 15 Jan 2022 17:25:37: #2 finished! INFO @ Sat, 15 Jan 2022 17:25:37: #2 predicted fragment length is 202 bps INFO @ Sat, 15 Jan 2022 17:25:37: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 15 Jan 2022 17:25:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10_model.r INFO @ Sat, 15 Jan 2022 17:25:37: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:25:37: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:25:38: 24000000 INFO @ Sat, 15 Jan 2022 17:25:45: 25000000 INFO @ Sat, 15 Jan 2022 17:25:51: 26000000 INFO @ Sat, 15 Jan 2022 17:25:57: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 17:25:57: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 17:25:57: #1 total tags in treatment: 26848495 INFO @ Sat, 15 Jan 2022 17:25:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:25:57: #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 17:25:58: #1 tags after filtering in treatment: 26848277 INFO @ Sat, 15 Jan 2022 17:25:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:25:58: #1 finished! INFO @ Sat, 15 Jan 2022 17:25:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:25:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:26:03: #2 number of paired peaks: 93137 INFO @ Sat, 15 Jan 2022 17:26:03: start model_add_line... INFO @ Sat, 15 Jan 2022 17:26:03: start X-correlation... INFO @ Sat, 15 Jan 2022 17:26:03: end of X-cor INFO @ Sat, 15 Jan 2022 17:26:03: #2 finished! INFO @ Sat, 15 Jan 2022 17:26:03: #2 predicted fragment length is 202 bps INFO @ Sat, 15 Jan 2022 17:26:03: #2 alternative fragment length(s) may be 202 bps INFO @ Sat, 15 Jan 2022 17:26:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20_model.r INFO @ Sat, 15 Jan 2022 17:26:03: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:26:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:26:11: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:26:44: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:26:50: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:26:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:26:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.05_summits.bed INFO @ Sat, 15 Jan 2022 17:26:51: Done! pass1 - making usageList (129 chroms): 4 millis pass2 - checking and writing primary data (22620 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:27:12: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:27:23: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:27:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:27:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.10_summits.bed INFO @ Sat, 15 Jan 2022 17:27:24: Done! pass1 - making usageList (104 chroms): 3 millis pass2 - checking and writing primary data (17831 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:27:49: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:27:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:27:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9963496/SRX9963496.20_summits.bed INFO @ Sat, 15 Jan 2022 17:27:50: Done! pass1 - making usageList (86 chroms): 3 millis pass2 - checking and writing primary data (13844 records, 4 fields): 18 millis CompletedMACS2peakCalling