Job ID = 14517936 SRX = SRX9702147 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 7450938 spots for SRR13272010/SRR13272010.sra Written 7450938 spots for SRR13272010/SRR13272010.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: 00:02:05 7450938 reads; of these: 7450938 (100.00%) were unpaired; of these: 549724 (7.38%) aligned 0 times 5401674 (72.50%) aligned exactly 1 time 1499540 (20.13%) aligned >1 times 92.62% overall alignment rate Time searching: 00:02:09 Overall time: 00:02:09 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_rmdupse_core] 255857 / 6901214 = 0.0371 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 06:23:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.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 06:23:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:23:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:24:01: 1000000 INFO @ Sat, 15 Jan 2022 06:24:06: 2000000 INFO @ Sat, 15 Jan 2022 06:24:11: 3000000 INFO @ Sat, 15 Jan 2022 06:24:16: 4000000 INFO @ Sat, 15 Jan 2022 06:24:22: 5000000 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 06:24:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.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 06:24:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:24:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:24:27: 6000000 INFO @ Sat, 15 Jan 2022 06:24:31: #1 tag size is determined as 36 bps INFO @ Sat, 15 Jan 2022 06:24:31: #1 tag size = 36 INFO @ Sat, 15 Jan 2022 06:24:31: #1 total tags in treatment: 6645357 INFO @ Sat, 15 Jan 2022 06:24:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:24:31: #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 06:24:31: #1 tags after filtering in treatment: 6645080 INFO @ Sat, 15 Jan 2022 06:24:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:24:31: #1 finished! INFO @ Sat, 15 Jan 2022 06:24:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:24:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:24:32: 1000000 INFO @ Sat, 15 Jan 2022 06:24:32: #2 number of paired peaks: 29977 INFO @ Sat, 15 Jan 2022 06:24:32: start model_add_line... INFO @ Sat, 15 Jan 2022 06:24:32: start X-correlation... INFO @ Sat, 15 Jan 2022 06:24:32: end of X-cor INFO @ Sat, 15 Jan 2022 06:24:32: #2 finished! INFO @ Sat, 15 Jan 2022 06:24:32: #2 predicted fragment length is 155 bps INFO @ Sat, 15 Jan 2022 06:24:32: #2 alternative fragment length(s) may be 155 bps INFO @ Sat, 15 Jan 2022 06:24:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05_model.r INFO @ Sat, 15 Jan 2022 06:24:32: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:24:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:24:38: 2000000 INFO @ Sat, 15 Jan 2022 06:24:44: 3000000 INFO @ Sat, 15 Jan 2022 06:24:47: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:24:50: 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 06:24:54: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05_peaks.xls INFO @ Sat, 15 Jan 2022 06:24:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:24:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.05_summits.bed INFO @ Sat, 15 Jan 2022 06:24:55: Done! pass1 - making usageList (87 chroms): 3 millis pass2 - checking and writing primary data (19456 records, 4 fields): 41 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:24:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.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 06:24:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:24:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:24:56: 5000000 INFO @ Sat, 15 Jan 2022 06:25:02: 1000000 INFO @ Sat, 15 Jan 2022 06:25:02: 6000000 INFO @ Sat, 15 Jan 2022 06:25:06: #1 tag size is determined as 36 bps INFO @ Sat, 15 Jan 2022 06:25:06: #1 tag size = 36 INFO @ Sat, 15 Jan 2022 06:25:06: #1 total tags in treatment: 6645357 INFO @ Sat, 15 Jan 2022 06:25:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:25:06: #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 06:25:07: #1 tags after filtering in treatment: 6645080 INFO @ Sat, 15 Jan 2022 06:25:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:25:07: #1 finished! INFO @ Sat, 15 Jan 2022 06:25:07: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:25:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:25:08: 2000000 INFO @ Sat, 15 Jan 2022 06:25:08: #2 number of paired peaks: 29977 INFO @ Sat, 15 Jan 2022 06:25:08: start model_add_line... INFO @ Sat, 15 Jan 2022 06:25:08: start X-correlation... INFO @ Sat, 15 Jan 2022 06:25:08: end of X-cor INFO @ Sat, 15 Jan 2022 06:25:08: #2 finished! INFO @ Sat, 15 Jan 2022 06:25:08: #2 predicted fragment length is 155 bps INFO @ Sat, 15 Jan 2022 06:25:08: #2 alternative fragment length(s) may be 155 bps INFO @ Sat, 15 Jan 2022 06:25:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10_model.r INFO @ Sat, 15 Jan 2022 06:25:08: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:25:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:25:13: 3000000 INFO @ Sat, 15 Jan 2022 06:25:18: 4000000 INFO @ Sat, 15 Jan 2022 06:25:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:25:24: 5000000 INFO @ Sat, 15 Jan 2022 06:25:29: 6000000 INFO @ Sat, 15 Jan 2022 06:25:31: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10_peaks.xls INFO @ Sat, 15 Jan 2022 06:25:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:25:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.10_summits.bed INFO @ Sat, 15 Jan 2022 06:25:31: Done! pass1 - making usageList (67 chroms): 3 millis pass2 - checking and writing primary data (13900 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:25:32: #1 tag size is determined as 36 bps INFO @ Sat, 15 Jan 2022 06:25:32: #1 tag size = 36 INFO @ Sat, 15 Jan 2022 06:25:32: #1 total tags in treatment: 6645357 INFO @ Sat, 15 Jan 2022 06:25:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:25:32: #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 06:25:32: #1 tags after filtering in treatment: 6645080 INFO @ Sat, 15 Jan 2022 06:25:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:25:32: #1 finished! INFO @ Sat, 15 Jan 2022 06:25:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:25:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:25:34: #2 number of paired peaks: 29977 INFO @ Sat, 15 Jan 2022 06:25:34: start model_add_line... INFO @ Sat, 15 Jan 2022 06:25:34: start X-correlation... INFO @ Sat, 15 Jan 2022 06:25:34: end of X-cor INFO @ Sat, 15 Jan 2022 06:25:34: #2 finished! INFO @ Sat, 15 Jan 2022 06:25:34: #2 predicted fragment length is 155 bps INFO @ Sat, 15 Jan 2022 06:25:34: #2 alternative fragment length(s) may be 155 bps INFO @ Sat, 15 Jan 2022 06:25:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20_model.r INFO @ Sat, 15 Jan 2022 06:25:34: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:25:34: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 06:25:48: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:25:56: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20_peaks.xls INFO @ Sat, 15 Jan 2022 06:25:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:25:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9702147/SRX9702147.20_summits.bed INFO @ Sat, 15 Jan 2022 06:25:56: Done! pass1 - making usageList (34 chroms): 1 millis pass2 - checking and writing primary data (6989 records, 4 fields): 10 millis CompletedMACS2peakCalling