Job ID = 14517948 SRX = SRX9596815 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 40552548 spots for SRR13156653/SRR13156653.sra Written 40552548 spots for SRR13156653/SRR13156653.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: 00:30:08 40552548 reads; of these: 40552548 (100.00%) were unpaired; of these: 5793411 (14.29%) aligned 0 times 29468282 (72.67%) aligned exactly 1 time 5290855 (13.05%) aligned >1 times 85.71% overall alignment rate Time searching: 00:30:09 Overall time: 00:30:09 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] 9750531 / 34759137 = 0.2805 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 07:08:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.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 07:08:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:08:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:08:50: 1000000 INFO @ Sat, 15 Jan 2022 07:08:57: 2000000 INFO @ Sat, 15 Jan 2022 07:09:03: 3000000 INFO @ Sat, 15 Jan 2022 07:09:09: 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 07:09:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.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 07:09:14: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:09:14: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:09:16: 5000000 INFO @ Sat, 15 Jan 2022 07:09:21: 1000000 INFO @ Sat, 15 Jan 2022 07:09:23: 6000000 INFO @ Sat, 15 Jan 2022 07:09:28: 2000000 INFO @ Sat, 15 Jan 2022 07:09:30: 7000000 INFO @ Sat, 15 Jan 2022 07:09:35: 3000000 INFO @ Sat, 15 Jan 2022 07:09:37: 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 07:09:42: 4000000 INFO @ Sat, 15 Jan 2022 07:09:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.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 07:09:44: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:09:44: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:09:44: 9000000 INFO @ Sat, 15 Jan 2022 07:09:50: 5000000 INFO @ Sat, 15 Jan 2022 07:09:51: 1000000 INFO @ Sat, 15 Jan 2022 07:09:52: 10000000 INFO @ Sat, 15 Jan 2022 07:09:57: 6000000 INFO @ Sat, 15 Jan 2022 07:09:59: 2000000 INFO @ Sat, 15 Jan 2022 07:09:59: 11000000 INFO @ Sat, 15 Jan 2022 07:10:04: 7000000 INFO @ Sat, 15 Jan 2022 07:10:06: 3000000 INFO @ Sat, 15 Jan 2022 07:10:07: 12000000 INFO @ Sat, 15 Jan 2022 07:10:12: 8000000 INFO @ Sat, 15 Jan 2022 07:10:13: 4000000 INFO @ Sat, 15 Jan 2022 07:10:14: 13000000 INFO @ Sat, 15 Jan 2022 07:10:19: 9000000 INFO @ Sat, 15 Jan 2022 07:10:21: 5000000 INFO @ Sat, 15 Jan 2022 07:10:21: 14000000 INFO @ Sat, 15 Jan 2022 07:10:26: 10000000 INFO @ Sat, 15 Jan 2022 07:10:28: 6000000 INFO @ Sat, 15 Jan 2022 07:10:28: 15000000 INFO @ Sat, 15 Jan 2022 07:10:34: 11000000 INFO @ Sat, 15 Jan 2022 07:10:35: 7000000 INFO @ Sat, 15 Jan 2022 07:10:36: 16000000 INFO @ Sat, 15 Jan 2022 07:10:41: 12000000 INFO @ Sat, 15 Jan 2022 07:10:43: 8000000 INFO @ Sat, 15 Jan 2022 07:10:43: 17000000 INFO @ Sat, 15 Jan 2022 07:10:48: 13000000 INFO @ Sat, 15 Jan 2022 07:10:50: 9000000 INFO @ Sat, 15 Jan 2022 07:10:51: 18000000 INFO @ Sat, 15 Jan 2022 07:10:55: 14000000 INFO @ Sat, 15 Jan 2022 07:10:57: 10000000 INFO @ Sat, 15 Jan 2022 07:10:58: 19000000 INFO @ Sat, 15 Jan 2022 07:11:02: 15000000 INFO @ Sat, 15 Jan 2022 07:11:05: 11000000 INFO @ Sat, 15 Jan 2022 07:11:05: 20000000 INFO @ Sat, 15 Jan 2022 07:11:09: 16000000 INFO @ Sat, 15 Jan 2022 07:11:12: 12000000 INFO @ Sat, 15 Jan 2022 07:11:12: 21000000 INFO @ Sat, 15 Jan 2022 07:11:16: 17000000 INFO @ Sat, 15 Jan 2022 07:11:19: 13000000 INFO @ Sat, 15 Jan 2022 07:11:19: 22000000 INFO @ Sat, 15 Jan 2022 07:11:24: 18000000 INFO @ Sat, 15 Jan 2022 07:11:26: 14000000 INFO @ Sat, 15 Jan 2022 07:11:27: 23000000 INFO @ Sat, 15 Jan 2022 07:11:31: 19000000 INFO @ Sat, 15 Jan 2022 07:11:33: 15000000 INFO @ Sat, 15 Jan 2022 07:11:34: 24000000 INFO @ Sat, 15 Jan 2022 07:11:38: 20000000 INFO @ Sat, 15 Jan 2022 07:11:41: 16000000 INFO @ Sat, 15 Jan 2022 07:11:41: 25000000 INFO @ Sat, 15 Jan 2022 07:11:42: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:11:42: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:11:42: #1 total tags in treatment: 25008606 INFO @ Sat, 15 Jan 2022 07:11:42: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:11:42: #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 07:11:42: #1 tags after filtering in treatment: 25008460 INFO @ Sat, 15 Jan 2022 07:11:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:11:42: #1 finished! INFO @ Sat, 15 Jan 2022 07:11:42: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:11:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:11:45: 21000000 INFO @ Sat, 15 Jan 2022 07:11:46: #2 number of paired peaks: 58140 INFO @ Sat, 15 Jan 2022 07:11:46: start model_add_line... INFO @ Sat, 15 Jan 2022 07:11:46: start X-correlation... INFO @ Sat, 15 Jan 2022 07:11:46: end of X-cor INFO @ Sat, 15 Jan 2022 07:11:46: #2 finished! INFO @ Sat, 15 Jan 2022 07:11:46: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 07:11:46: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 07:11:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05_model.r INFO @ Sat, 15 Jan 2022 07:11:46: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:11:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:11:48: 17000000 INFO @ Sat, 15 Jan 2022 07:11:52: 22000000 INFO @ Sat, 15 Jan 2022 07:11:55: 18000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 07:12:00: 23000000 INFO @ Sat, 15 Jan 2022 07:12:02: 19000000 INFO @ Sat, 15 Jan 2022 07:12:06: 24000000 INFO @ Sat, 15 Jan 2022 07:12:08: 20000000 INFO @ Sat, 15 Jan 2022 07:12:13: 25000000 INFO @ Sat, 15 Jan 2022 07:12:13: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:12:13: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:12:13: #1 total tags in treatment: 25008606 INFO @ Sat, 15 Jan 2022 07:12:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:12:13: #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 07:12:14: #1 tags after filtering in treatment: 25008460 INFO @ Sat, 15 Jan 2022 07:12:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:12:14: #1 finished! INFO @ Sat, 15 Jan 2022 07:12:14: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:12:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:12:14: 21000000 INFO @ Sat, 15 Jan 2022 07:12:17: #2 number of paired peaks: 58140 INFO @ Sat, 15 Jan 2022 07:12:17: start model_add_line... INFO @ Sat, 15 Jan 2022 07:12:18: start X-correlation... INFO @ Sat, 15 Jan 2022 07:12:18: end of X-cor INFO @ Sat, 15 Jan 2022 07:12:18: #2 finished! INFO @ Sat, 15 Jan 2022 07:12:18: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 07:12:18: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 07:12:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10_model.r INFO @ Sat, 15 Jan 2022 07:12:18: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:12:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:12:20: 22000000 INFO @ Sat, 15 Jan 2022 07:12:26: 23000000 INFO @ Sat, 15 Jan 2022 07:12:32: 24000000 INFO @ Sat, 15 Jan 2022 07:12:38: 25000000 INFO @ Sat, 15 Jan 2022 07:12:39: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:12:39: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:12:39: #1 total tags in treatment: 25008606 INFO @ Sat, 15 Jan 2022 07:12:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:12:39: #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 07:12:39: #1 tags after filtering in treatment: 25008460 INFO @ Sat, 15 Jan 2022 07:12:39: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:12:39: #1 finished! INFO @ Sat, 15 Jan 2022 07:12:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:12:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:12:43: #2 number of paired peaks: 58140 INFO @ Sat, 15 Jan 2022 07:12:43: start model_add_line... INFO @ Sat, 15 Jan 2022 07:12:43: start X-correlation... INFO @ Sat, 15 Jan 2022 07:12:43: end of X-cor INFO @ Sat, 15 Jan 2022 07:12:43: #2 finished! INFO @ Sat, 15 Jan 2022 07:12:43: #2 predicted fragment length is 211 bps INFO @ Sat, 15 Jan 2022 07:12:43: #2 alternative fragment length(s) may be 211 bps INFO @ Sat, 15 Jan 2022 07:12:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20_model.r INFO @ Sat, 15 Jan 2022 07:12:43: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:12:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:12:43: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 07:13:14: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05_peaks.xls INFO @ Sat, 15 Jan 2022 07:13:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:13:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.05_summits.bed INFO @ Sat, 15 Jan 2022 07:13:14: Done! pass1 - making usageList (114 chroms): 3 millis pass2 - checking and writing primary data (19330 records, 4 fields): 28 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:13:16: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:13:40: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:13:47: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10_peaks.xls INFO @ Sat, 15 Jan 2022 07:13:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:13:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.10_summits.bed INFO @ Sat, 15 Jan 2022 07:13:47: Done! pass1 - making usageList (88 chroms): 3 millis pass2 - checking and writing primary data (12660 records, 4 fields): 14 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:14:10: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20_peaks.xls INFO @ Sat, 15 Jan 2022 07:14:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:14:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596815/SRX9596815.20_summits.bed INFO @ Sat, 15 Jan 2022 07:14:10: Done! pass1 - making usageList (56 chroms): 1 millis pass2 - checking and writing primary data (6841 records, 4 fields): 9 millis CompletedMACS2peakCalling