Job ID = 14517860 SRX = SRX6581755 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 21559670 spots for SRR9825088/SRR9825088.sra Written 21559670 spots for SRR9825088/SRR9825088.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:21:58 21559670 reads; of these: 21559670 (100.00%) were unpaired; of these: 2144043 (9.94%) aligned 0 times 17059717 (79.13%) aligned exactly 1 time 2355910 (10.93%) aligned >1 times 90.06% overall alignment rate Time searching: 00:21:59 Overall time: 00:21:59 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] 705940 / 19415627 = 0.0364 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 06:04:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.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 06:04:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:04:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:04:44: 1000000 INFO @ Sat, 15 Jan 2022 06:04:50: 2000000 INFO @ Sat, 15 Jan 2022 06:04:56: 3000000 INFO @ Sat, 15 Jan 2022 06:05:01: 4000000 INFO @ Sat, 15 Jan 2022 06:05:07: 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 06:05:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.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 06:05:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:05:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:05:12: 6000000 INFO @ Sat, 15 Jan 2022 06:05:15: 1000000 INFO @ Sat, 15 Jan 2022 06:05:18: 7000000 INFO @ Sat, 15 Jan 2022 06:05:20: 2000000 INFO @ Sat, 15 Jan 2022 06:05:24: 8000000 INFO @ Sat, 15 Jan 2022 06:05:26: 3000000 INFO @ Sat, 15 Jan 2022 06:05:29: 9000000 INFO @ Sat, 15 Jan 2022 06:05:32: 4000000 INFO @ Sat, 15 Jan 2022 06:05:35: 10000000 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 06:05:38: 5000000 INFO @ Sat, 15 Jan 2022 06:05:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.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 06:05:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 06:05:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 06:05:41: 11000000 INFO @ Sat, 15 Jan 2022 06:05:43: 6000000 INFO @ Sat, 15 Jan 2022 06:05:45: 1000000 INFO @ Sat, 15 Jan 2022 06:05:46: 12000000 INFO @ Sat, 15 Jan 2022 06:05:49: 7000000 INFO @ Sat, 15 Jan 2022 06:05:50: 2000000 INFO @ Sat, 15 Jan 2022 06:05:52: 13000000 INFO @ Sat, 15 Jan 2022 06:05:55: 8000000 INFO @ Sat, 15 Jan 2022 06:05:56: 3000000 INFO @ Sat, 15 Jan 2022 06:05:57: 14000000 INFO @ Sat, 15 Jan 2022 06:06:01: 9000000 INFO @ Sat, 15 Jan 2022 06:06:02: 4000000 INFO @ Sat, 15 Jan 2022 06:06:03: 15000000 INFO @ Sat, 15 Jan 2022 06:06:06: 10000000 INFO @ Sat, 15 Jan 2022 06:06:08: 5000000 INFO @ Sat, 15 Jan 2022 06:06:09: 16000000 INFO @ Sat, 15 Jan 2022 06:06:12: 11000000 INFO @ Sat, 15 Jan 2022 06:06:14: 6000000 INFO @ Sat, 15 Jan 2022 06:06:15: 17000000 INFO @ Sat, 15 Jan 2022 06:06:18: 12000000 INFO @ Sat, 15 Jan 2022 06:06:20: 7000000 INFO @ Sat, 15 Jan 2022 06:06:20: 18000000 INFO @ Sat, 15 Jan 2022 06:06:24: 13000000 INFO @ Sat, 15 Jan 2022 06:06:25: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:06:25: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:06:25: #1 total tags in treatment: 18709687 INFO @ Sat, 15 Jan 2022 06:06:25: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:06:25: #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 06:06:25: #1 tags after filtering in treatment: 18709491 INFO @ Sat, 15 Jan 2022 06:06:25: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:06:25: #1 finished! INFO @ Sat, 15 Jan 2022 06:06:25: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:06:25: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:06:25: 8000000 INFO @ Sat, 15 Jan 2022 06:06:29: 14000000 INFO @ Sat, 15 Jan 2022 06:06:30: #2 number of paired peaks: 144842 INFO @ Sat, 15 Jan 2022 06:06:30: start model_add_line... INFO @ Sat, 15 Jan 2022 06:06:30: start X-correlation... INFO @ Sat, 15 Jan 2022 06:06:30: end of X-cor INFO @ Sat, 15 Jan 2022 06:06:30: #2 finished! INFO @ Sat, 15 Jan 2022 06:06:30: #2 predicted fragment length is 188 bps INFO @ Sat, 15 Jan 2022 06:06:30: #2 alternative fragment length(s) may be 188 bps INFO @ Sat, 15 Jan 2022 06:06:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05_model.r INFO @ Sat, 15 Jan 2022 06:06:30: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:06:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:06:31: 9000000 INFO @ Sat, 15 Jan 2022 06:06:35: 15000000 INFO @ Sat, 15 Jan 2022 06:06:37: 10000000 INFO @ Sat, 15 Jan 2022 06:06:41: 16000000 INFO @ Sat, 15 Jan 2022 06:06:43: 11000000 INFO @ Sat, 15 Jan 2022 06:06:46: 17000000 INFO @ Sat, 15 Jan 2022 06:06:48: 12000000 INFO @ Sat, 15 Jan 2022 06:06:52: 18000000 INFO @ Sat, 15 Jan 2022 06:06:54: 13000000 INFO @ Sat, 15 Jan 2022 06:06:57: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:06:57: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:06:57: #1 total tags in treatment: 18709687 INFO @ Sat, 15 Jan 2022 06:06:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:06:57: #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 06:06:57: #1 tags after filtering in treatment: 18709491 INFO @ Sat, 15 Jan 2022 06:06:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:06:57: #1 finished! INFO @ Sat, 15 Jan 2022 06:06:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:06:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 06:07:00: 14000000 INFO @ Sat, 15 Jan 2022 06:07:02: #2 number of paired peaks: 144842 INFO @ Sat, 15 Jan 2022 06:07:02: start model_add_line... INFO @ Sat, 15 Jan 2022 06:07:02: start X-correlation... INFO @ Sat, 15 Jan 2022 06:07:02: end of X-cor INFO @ Sat, 15 Jan 2022 06:07:02: #2 finished! INFO @ Sat, 15 Jan 2022 06:07:02: #2 predicted fragment length is 188 bps INFO @ Sat, 15 Jan 2022 06:07:02: #2 alternative fragment length(s) may be 188 bps INFO @ Sat, 15 Jan 2022 06:07:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10_model.r INFO @ Sat, 15 Jan 2022 06:07:02: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:07:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:07:05: 15000000 INFO @ Sat, 15 Jan 2022 06:07:10: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:07:11: 16000000 INFO @ Sat, 15 Jan 2022 06:07:17: 17000000 INFO @ Sat, 15 Jan 2022 06:07:22: 18000000 INFO @ Sat, 15 Jan 2022 06:07:27: #1 tag size is determined as 76 bps INFO @ Sat, 15 Jan 2022 06:07:27: #1 tag size = 76 INFO @ Sat, 15 Jan 2022 06:07:27: #1 total tags in treatment: 18709687 INFO @ Sat, 15 Jan 2022 06:07:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 06:07:27: #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 06:07:27: #1 tags after filtering in treatment: 18709491 INFO @ Sat, 15 Jan 2022 06:07:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 06:07:27: #1 finished! INFO @ Sat, 15 Jan 2022 06:07:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 06:07:27: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 06:07:32: #2 number of paired peaks: 144842 INFO @ Sat, 15 Jan 2022 06:07:32: start model_add_line... INFO @ Sat, 15 Jan 2022 06:07:32: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05_peaks.xls INFO @ Sat, 15 Jan 2022 06:07:32: start X-correlation... INFO @ Sat, 15 Jan 2022 06:07:32: end of X-cor INFO @ Sat, 15 Jan 2022 06:07:32: #2 finished! INFO @ Sat, 15 Jan 2022 06:07:32: #2 predicted fragment length is 188 bps INFO @ Sat, 15 Jan 2022 06:07:32: #2 alternative fragment length(s) may be 188 bps INFO @ Sat, 15 Jan 2022 06:07:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20_model.r INFO @ Sat, 15 Jan 2022 06:07:32: #3 Call peaks... INFO @ Sat, 15 Jan 2022 06:07:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 06:07:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:07:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.05_summits.bed INFO @ Sat, 15 Jan 2022 06:07:33: Done! pass1 - making usageList (142 chroms): 12 millis pass2 - checking and writing primary data (82191 records, 4 fields): 72 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:07:41: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 06:08:03: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10_peaks.xls INFO @ Sat, 15 Jan 2022 06:08:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:08:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.10_summits.bed INFO @ Sat, 15 Jan 2022 06:08:04: Done! BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 06:08:13: #3 Call peaks for each chromosome... pass1 - making usageList (85 chroms): 5 millis pass2 - checking and writing primary data (38234 records, 4 fields): 36 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 06:08:35: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20_peaks.xls INFO @ Sat, 15 Jan 2022 06:08:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 06:08:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581755/SRX6581755.20_summits.bed INFO @ Sat, 15 Jan 2022 06:08:35: Done! pass1 - making usageList (37 chroms): 2 millis pass2 - checking and writing primary data (7158 records, 4 fields): 8 millis CompletedMACS2peakCalling