Job ID = 14518175 SRX = SRX9430843 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 9576764 spots for SRR12979012/SRR12979012.sra Written 9576764 spots for SRR12979012/SRR12979012.sra Read 9290166 spots for SRR12979013/SRR12979013.sra Written 9290166 spots for SRR12979013/SRR12979013.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: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:40:01 18866930 reads; of these: 18866930 (100.00%) were unpaired; of these: 3233667 (17.14%) aligned 0 times 10565936 (56.00%) aligned exactly 1 time 5067327 (26.86%) aligned >1 times 82.86% overall alignment rate Time searching: 00:40:03 Overall time: 00:40:03 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 8 files... [bam_rmdupse_core] 2309401 / 15633263 = 0.1477 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 11:25:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.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 11:25:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 11:25:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 11:25:14: 1000000 INFO @ Sat, 15 Jan 2022 11:25:20: 2000000 INFO @ Sat, 15 Jan 2022 11:25:27: 3000000 INFO @ Sat, 15 Jan 2022 11:25:33: 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 11:25:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.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 11:25:37: #1 read tag files... INFO @ Sat, 15 Jan 2022 11:25:37: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 11:25:40: 5000000 INFO @ Sat, 15 Jan 2022 11:25:43: 1000000 INFO @ Sat, 15 Jan 2022 11:25:47: 6000000 INFO @ Sat, 15 Jan 2022 11:25:50: 2000000 INFO @ Sat, 15 Jan 2022 11:25:54: 7000000 INFO @ Sat, 15 Jan 2022 11:25:56: 3000000 INFO @ Sat, 15 Jan 2022 11:26:01: 8000000 INFO @ Sat, 15 Jan 2022 11:26:03: 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 11:26:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.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 11:26:07: #1 read tag files... INFO @ Sat, 15 Jan 2022 11:26:07: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 11:26:08: 9000000 INFO @ Sat, 15 Jan 2022 11:26:10: 5000000 INFO @ Sat, 15 Jan 2022 11:26:14: 1000000 INFO @ Sat, 15 Jan 2022 11:26:15: 10000000 INFO @ Sat, 15 Jan 2022 11:26:16: 6000000 INFO @ Sat, 15 Jan 2022 11:26:21: 2000000 INFO @ Sat, 15 Jan 2022 11:26:23: 11000000 INFO @ Sat, 15 Jan 2022 11:26:23: 7000000 INFO @ Sat, 15 Jan 2022 11:26:28: 3000000 INFO @ Sat, 15 Jan 2022 11:26:29: 8000000 INFO @ Sat, 15 Jan 2022 11:26:30: 12000000 INFO @ Sat, 15 Jan 2022 11:26:35: 4000000 INFO @ Sat, 15 Jan 2022 11:26:36: 9000000 INFO @ Sat, 15 Jan 2022 11:26:37: 13000000 INFO @ Sat, 15 Jan 2022 11:26:39: #1 tag size is determined as 58 bps INFO @ Sat, 15 Jan 2022 11:26:39: #1 tag size = 58 INFO @ Sat, 15 Jan 2022 11:26:39: #1 total tags in treatment: 13323862 INFO @ Sat, 15 Jan 2022 11:26:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 11:26:39: #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 11:26:40: #1 tags after filtering in treatment: 13323685 INFO @ Sat, 15 Jan 2022 11:26:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 11:26:40: #1 finished! INFO @ Sat, 15 Jan 2022 11:26:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 11:26:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 11:26:42: #2 number of paired peaks: 29251 INFO @ Sat, 15 Jan 2022 11:26:42: start model_add_line... INFO @ Sat, 15 Jan 2022 11:26:42: start X-correlation... INFO @ Sat, 15 Jan 2022 11:26:42: end of X-cor INFO @ Sat, 15 Jan 2022 11:26:42: #2 finished! INFO @ Sat, 15 Jan 2022 11:26:42: #2 predicted fragment length is 136 bps INFO @ Sat, 15 Jan 2022 11:26:42: #2 alternative fragment length(s) may be 136 bps INFO @ Sat, 15 Jan 2022 11:26:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05_model.r INFO @ Sat, 15 Jan 2022 11:26:42: #3 Call peaks... INFO @ Sat, 15 Jan 2022 11:26:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 11:26:42: 5000000 INFO @ Sat, 15 Jan 2022 11:26:43: 10000000 INFO @ Sat, 15 Jan 2022 11:26:49: 11000000 INFO @ Sat, 15 Jan 2022 11:26:49: 6000000 INFO @ Sat, 15 Jan 2022 11:26:56: 12000000 INFO @ Sat, 15 Jan 2022 11:26:57: 7000000 INFO @ Sat, 15 Jan 2022 11:27:02: 13000000 INFO @ Sat, 15 Jan 2022 11:27:04: 8000000 INFO @ Sat, 15 Jan 2022 11:27:05: #1 tag size is determined as 58 bps INFO @ Sat, 15 Jan 2022 11:27:05: #1 tag size = 58 INFO @ Sat, 15 Jan 2022 11:27:05: #1 total tags in treatment: 13323862 INFO @ Sat, 15 Jan 2022 11:27:05: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 11:27:05: #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 11:27:05: #1 tags after filtering in treatment: 13323685 INFO @ Sat, 15 Jan 2022 11:27:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 11:27:05: #1 finished! INFO @ Sat, 15 Jan 2022 11:27:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 11:27:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 11:27:07: #2 number of paired peaks: 29251 INFO @ Sat, 15 Jan 2022 11:27:07: start model_add_line... INFO @ Sat, 15 Jan 2022 11:27:07: start X-correlation... INFO @ Sat, 15 Jan 2022 11:27:07: end of X-cor INFO @ Sat, 15 Jan 2022 11:27:07: #2 finished! INFO @ Sat, 15 Jan 2022 11:27:07: #2 predicted fragment length is 136 bps INFO @ Sat, 15 Jan 2022 11:27:07: #2 alternative fragment length(s) may be 136 bps INFO @ Sat, 15 Jan 2022 11:27:07: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10_model.r INFO @ Sat, 15 Jan 2022 11:27:07: #3 Call peaks... INFO @ Sat, 15 Jan 2022 11:27:07: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 11:27:10: 9000000 INFO @ Sat, 15 Jan 2022 11:27:12: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 11:27:17: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 11:27:23: 11000000 INFO @ Sat, 15 Jan 2022 11:27:27: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05_peaks.xls INFO @ Sat, 15 Jan 2022 11:27:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 11:27:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.05_summits.bed INFO @ Sat, 15 Jan 2022 11:27:27: Done! pass1 - making usageList (87 chroms): 2 millis pass2 - checking and writing primary data (12051 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 11:27:30: 12000000 INFO @ Sat, 15 Jan 2022 11:27:37: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 11:27:37: 13000000 INFO @ Sat, 15 Jan 2022 11:27:40: #1 tag size is determined as 58 bps INFO @ Sat, 15 Jan 2022 11:27:40: #1 tag size = 58 INFO @ Sat, 15 Jan 2022 11:27:40: #1 total tags in treatment: 13323862 INFO @ Sat, 15 Jan 2022 11:27:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 11:27:40: #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 11:27:40: #1 tags after filtering in treatment: 13323685 INFO @ Sat, 15 Jan 2022 11:27:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 11:27:40: #1 finished! INFO @ Sat, 15 Jan 2022 11:27:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 11:27:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 11:27:42: #2 number of paired peaks: 29251 INFO @ Sat, 15 Jan 2022 11:27:42: start model_add_line... INFO @ Sat, 15 Jan 2022 11:27:42: start X-correlation... INFO @ Sat, 15 Jan 2022 11:27:42: end of X-cor INFO @ Sat, 15 Jan 2022 11:27:42: #2 finished! INFO @ Sat, 15 Jan 2022 11:27:42: #2 predicted fragment length is 136 bps INFO @ Sat, 15 Jan 2022 11:27:42: #2 alternative fragment length(s) may be 136 bps INFO @ Sat, 15 Jan 2022 11:27:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20_model.r INFO @ Sat, 15 Jan 2022 11:27:42: #3 Call peaks... INFO @ Sat, 15 Jan 2022 11:27:42: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 11:27:52: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10_peaks.xls INFO @ Sat, 15 Jan 2022 11:27:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 11:27:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.10_summits.bed INFO @ Sat, 15 Jan 2022 11:27:52: Done! pass1 - making usageList (46 chroms): 1 millis pass2 - checking and writing primary data (3752 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 11:28:12: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 11:28:27: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20_peaks.xls INFO @ Sat, 15 Jan 2022 11:28:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 11:28:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9430843/SRX9430843.20_summits.bed INFO @ Sat, 15 Jan 2022 11:28:27: Done! pass1 - making usageList (35 chroms): 1 millis pass2 - checking and writing primary data (1216 records, 4 fields): 4 millis CompletedMACS2peakCalling