Job ID = 14517859 SRX = SRX6581754 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 24881859 spots for SRR9825087/SRR9825087.sra Written 24881859 spots for SRR9825087/SRR9825087.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: 00:00:02 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:27:43 24881859 reads; of these: 24881859 (100.00%) were unpaired; of these: 729483 (2.93%) aligned 0 times 17581192 (70.66%) aligned exactly 1 time 6571184 (26.41%) aligned >1 times 97.07% overall alignment rate Time searching: 00:27:47 Overall time: 00:27:47 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 12 files... [bam_rmdupse_core] 3674638 / 24152376 = 0.1521 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 06:10:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.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 06:10:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:10:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:10:23: 1000000 INFO @ Sat, 15 Jan 2022 06:10:30: 2000000 INFO @ Sat, 15 Jan 2022 06:10:36: 3000000 INFO @ Sat, 15 Jan 2022 06:10:43: 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 06:10:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.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 06:10:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:10:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:10:49: 5000000 INFO @ Sat, 15 Jan 2022 06:10:54: 1000000 INFO @ Sat, 15 Jan 2022 06:10:56: 6000000 INFO @ Sat, 15 Jan 2022 06:11:01: 2000000 INFO @ Sat, 15 Jan 2022 06:11:03: 7000000 INFO @ Sat, 15 Jan 2022 06:11:08: 3000000 INFO @ Sat, 15 Jan 2022 06:11:10: 8000000 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 06:11:15: 4000000 INFO @ Sat, 15 Jan 2022 06:11:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.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 06:11:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:11:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:11:17: 9000000 INFO @ Sat, 15 Jan 2022 06:11:22: 5000000 INFO @ Sat, 15 Jan 2022 06:11:24: 1000000 INFO @ Sat, 15 Jan 2022 06:11:24: 10000000 INFO @ Sat, 15 Jan 2022 06:11:29: 6000000 INFO @ Sat, 15 Jan 2022 06:11:31: 2000000 INFO @ Sat, 15 Jan 2022 06:11:31: 11000000 INFO @ Sat, 15 Jan 2022 06:11:36: 7000000 INFO @ Sat, 15 Jan 2022 06:11:38: 3000000 INFO @ Sat, 15 Jan 2022 06:11:38: 12000000 INFO @ Sat, 15 Jan 2022 06:11:43: 8000000 INFO @ Sat, 15 Jan 2022 06:11:44: 4000000 INFO @ Sat, 15 Jan 2022 06:11:45: 13000000 INFO @ Sat, 15 Jan 2022 06:11:49: 9000000 INFO @ Sat, 15 Jan 2022 06:11:51: 5000000 INFO @ Sat, 15 Jan 2022 06:11:51: 14000000 INFO @ Sat, 15 Jan 2022 06:11:56: 10000000 INFO @ Sat, 15 Jan 2022 06:11:58: 15000000 INFO @ Sat, 15 Jan 2022 06:11:58: 6000000 INFO @ Sat, 15 Jan 2022 06:12:03: 11000000 INFO @ Sat, 15 Jan 2022 06:12:05: 16000000 INFO @ Sat, 15 Jan 2022 06:12:05: 7000000 INFO @ Sat, 15 Jan 2022 06:12:10: 12000000 INFO @ Sat, 15 Jan 2022 06:12:12: 17000000 INFO @ Sat, 15 Jan 2022 06:12:12: 8000000 INFO @ Sat, 15 Jan 2022 06:12:17: 13000000 INFO @ Sat, 15 Jan 2022 06:12:19: 18000000 INFO @ Sat, 15 Jan 2022 06:12:19: 9000000 INFO @ Sat, 15 Jan 2022 06:12:24: 14000000 INFO @ Sat, 15 Jan 2022 06:12:26: 19000000 INFO @ Sat, 15 Jan 2022 06:12:26: 10000000 INFO @ Sat, 15 Jan 2022 06:12:30: 15000000 INFO @ Sat, 15 Jan 2022 06:12:33: 11000000 INFO @ Sat, 15 Jan 2022 06:12:33: 20000000 INFO @ Sat, 15 Jan 2022 06:12:36: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:12:36: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:12:36: #1 total tags in treatment: 20477738 INFO @ Sat, 15 Jan 2022 06:12:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:12:36: #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 06:12:37: #1 tags after filtering in treatment: 20477590 INFO @ Sat, 15 Jan 2022 06:12:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:12:37: #1 finished! INFO @ Sat, 15 Jan 2022 06:12:37: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:12:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:12:37: 16000000 INFO @ Sat, 15 Jan 2022 06:12:39: #2 number of paired peaks: 23746 INFO @ Sat, 15 Jan 2022 06:12:39: start model_add_line... INFO @ Sat, 15 Jan 2022 06:12:39: start X-correlation... INFO @ Sat, 15 Jan 2022 06:12:39: end of X-cor INFO @ Sat, 15 Jan 2022 06:12:39: #2 finished! INFO @ Sat, 15 Jan 2022 06:12:39: #2 predicted fragment length is 175 bps INFO @ Sat, 15 Jan 2022 06:12:39: #2 alternative fragment length(s) may be 175 bps INFO @ Sat, 15 Jan 2022 06:12:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05_model.r INFO @ Sat, 15 Jan 2022 06:12:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:12:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:12:39: 12000000 INFO @ Sat, 15 Jan 2022 06:12:44: 17000000 INFO @ Sat, 15 Jan 2022 06:12:46: 13000000 INFO @ Sat, 15 Jan 2022 06:12:51: 18000000 INFO @ Sat, 15 Jan 2022 06:12:53: 14000000 INFO @ Sat, 15 Jan 2022 06:12:57: 19000000 INFO @ Sat, 15 Jan 2022 06:13:00: 15000000 INFO @ Sat, 15 Jan 2022 06:13:04: 20000000 INFO @ Sat, 15 Jan 2022 06:13:06: 16000000 INFO @ Sat, 15 Jan 2022 06:13:08: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:13:08: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:13:08: #1 total tags in treatment: 20477738 INFO @ Sat, 15 Jan 2022 06:13:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:13:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 06:13:08: #1 tags after filtering in treatment: 20477590 INFO @ Sat, 15 Jan 2022 06:13:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:13:08: #1 finished! INFO @ Sat, 15 Jan 2022 06:13:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:13:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:13:10: #2 number of paired peaks: 23746 INFO @ Sat, 15 Jan 2022 06:13:10: start model_add_line... INFO @ Sat, 15 Jan 2022 06:13:11: start X-correlation... INFO @ Sat, 15 Jan 2022 06:13:11: end of X-cor INFO @ Sat, 15 Jan 2022 06:13:11: #2 finished! INFO @ Sat, 15 Jan 2022 06:13:11: #2 predicted fragment length is 175 bps INFO @ Sat, 15 Jan 2022 06:13:11: #2 alternative fragment length(s) may be 175 bps INFO @ Sat, 15 Jan 2022 06:13:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10_model.r INFO @ Sat, 15 Jan 2022 06:13:11: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:13:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:13:13: 17000000 INFO @ Sat, 15 Jan 2022 06:13:20: 18000000 INFO @ Sat, 15 Jan 2022 06:13:26: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:13:26: 19000000 INFO @ Sat, 15 Jan 2022 06:13:33: 20000000 INFO @ Sat, 15 Jan 2022 06:13:36: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 06:13:36: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 06:13:36: #1 total tags in treatment: 20477738 INFO @ Sat, 15 Jan 2022 06:13:36: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:13:36: #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 06:13:36: #1 tags after filtering in treatment: 20477590 INFO @ Sat, 15 Jan 2022 06:13:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:13:36: #1 finished! INFO @ Sat, 15 Jan 2022 06:13:36: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:13:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:13:39: #2 number of paired peaks: 23746 INFO @ Sat, 15 Jan 2022 06:13:39: start model_add_line... INFO @ Sat, 15 Jan 2022 06:13:39: start X-correlation... INFO @ Sat, 15 Jan 2022 06:13:39: end of X-cor INFO @ Sat, 15 Jan 2022 06:13:39: #2 finished! INFO @ Sat, 15 Jan 2022 06:13:39: #2 predicted fragment length is 175 bps INFO @ Sat, 15 Jan 2022 06:13:39: #2 alternative fragment length(s) may be 175 bps INFO @ Sat, 15 Jan 2022 06:13:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20_model.r INFO @ Sat, 15 Jan 2022 06:13:39: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:13:39: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:13:49: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05_peaks.xls INFO @ Sat, 15 Jan 2022 06:13:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:13:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.05_summits.bed INFO @ Sat, 15 Jan 2022 06:13:49: Done! pass1 - making usageList (81 chroms): 2 millis pass2 - checking and writing primary data (17035 records, 4 fields): 18 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 06:13:57: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:14:21: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10_peaks.xls INFO @ Sat, 15 Jan 2022 06:14:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:14:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.10_summits.bed INFO @ Sat, 15 Jan 2022 06:14:21: Done! pass1 - making usageList (63 chroms): 2 millis pass2 - checking and writing primary data (10095 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:14:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:14:47: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20_peaks.xls INFO @ Sat, 15 Jan 2022 06:14:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:14:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581754/SRX6581754.20_summits.bed INFO @ Sat, 15 Jan 2022 06:14:47: Done! pass1 - making usageList (48 chroms): 1 millis pass2 - checking and writing primary data (5010 records, 4 fields): 15 millis CompletedMACS2peakCalling