Job ID = 14519641 SRX = SRX6581744 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 31680805 spots for SRR9825077/SRR9825077.sra Written 31680805 spots for SRR9825077/SRR9825077.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: 00:00:03 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:33:35 31680805 reads; of these: 31680805 (100.00%) were unpaired; of these: 1026481 (3.24%) aligned 0 times 26454659 (83.50%) aligned exactly 1 time 4199665 (13.26%) aligned >1 times 96.76% overall alignment rate Time searching: 00:33:39 Overall time: 00:33:39 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] 2791329 / 30654324 = 0.0911 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 17:48:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.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 17:48:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:48:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:48:37: 1000000 INFO @ Sat, 15 Jan 2022 17:48:44: 2000000 INFO @ Sat, 15 Jan 2022 17:48:50: 3000000 INFO @ Sat, 15 Jan 2022 17:48:56: 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 17:49:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.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 17:49:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:49:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:49:03: 5000000 INFO @ Sat, 15 Jan 2022 17:49:09: 1000000 INFO @ Sat, 15 Jan 2022 17:49:11: 6000000 INFO @ Sat, 15 Jan 2022 17:49:18: 2000000 INFO @ Sat, 15 Jan 2022 17:49:19: 7000000 INFO @ Sat, 15 Jan 2022 17:49:27: 3000000 INFO @ Sat, 15 Jan 2022 17:49:27: 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 17:49:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.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 17:49:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:49:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:49:35: 9000000 INFO @ Sat, 15 Jan 2022 17:49:36: 4000000 INFO @ Sat, 15 Jan 2022 17:49:39: 1000000 INFO @ Sat, 15 Jan 2022 17:49:44: 10000000 INFO @ Sat, 15 Jan 2022 17:49:45: 5000000 INFO @ Sat, 15 Jan 2022 17:49:47: 2000000 INFO @ Sat, 15 Jan 2022 17:49:52: 11000000 INFO @ Sat, 15 Jan 2022 17:49:54: 6000000 INFO @ Sat, 15 Jan 2022 17:49:55: 3000000 INFO @ Sat, 15 Jan 2022 17:50:00: 12000000 INFO @ Sat, 15 Jan 2022 17:50:02: 7000000 INFO @ Sat, 15 Jan 2022 17:50:03: 4000000 INFO @ Sat, 15 Jan 2022 17:50:08: 13000000 INFO @ Sat, 15 Jan 2022 17:50:10: 5000000 INFO @ Sat, 15 Jan 2022 17:50:11: 8000000 INFO @ Sat, 15 Jan 2022 17:50:16: 14000000 INFO @ Sat, 15 Jan 2022 17:50:18: 6000000 INFO @ Sat, 15 Jan 2022 17:50:20: 9000000 INFO @ Sat, 15 Jan 2022 17:50:24: 15000000 INFO @ Sat, 15 Jan 2022 17:50:26: 7000000 INFO @ Sat, 15 Jan 2022 17:50:29: 10000000 INFO @ Sat, 15 Jan 2022 17:50:32: 16000000 INFO @ Sat, 15 Jan 2022 17:50:34: 8000000 INFO @ Sat, 15 Jan 2022 17:50:38: 11000000 INFO @ Sat, 15 Jan 2022 17:50:40: 17000000 INFO @ Sat, 15 Jan 2022 17:50:42: 9000000 INFO @ Sat, 15 Jan 2022 17:50:46: 12000000 INFO @ Sat, 15 Jan 2022 17:50:48: 18000000 INFO @ Sat, 15 Jan 2022 17:50:50: 10000000 INFO @ Sat, 15 Jan 2022 17:50:55: 13000000 INFO @ Sat, 15 Jan 2022 17:50:56: 19000000 INFO @ Sat, 15 Jan 2022 17:50:58: 11000000 INFO @ Sat, 15 Jan 2022 17:51:04: 14000000 INFO @ Sat, 15 Jan 2022 17:51:04: 20000000 INFO @ Sat, 15 Jan 2022 17:51:06: 12000000 INFO @ Sat, 15 Jan 2022 17:51:12: 21000000 INFO @ Sat, 15 Jan 2022 17:51:13: 15000000 INFO @ Sat, 15 Jan 2022 17:51:14: 13000000 INFO @ Sat, 15 Jan 2022 17:51:21: 22000000 INFO @ Sat, 15 Jan 2022 17:51:22: 16000000 INFO @ Sat, 15 Jan 2022 17:51:22: 14000000 INFO @ Sat, 15 Jan 2022 17:51:29: 23000000 INFO @ Sat, 15 Jan 2022 17:51:30: 15000000 INFO @ Sat, 15 Jan 2022 17:51:31: 17000000 INFO @ Sat, 15 Jan 2022 17:51:37: 24000000 INFO @ Sat, 15 Jan 2022 17:51:38: 16000000 INFO @ Sat, 15 Jan 2022 17:51:40: 18000000 INFO @ Sat, 15 Jan 2022 17:51:45: 25000000 INFO @ Sat, 15 Jan 2022 17:51:46: 17000000 INFO @ Sat, 15 Jan 2022 17:51:48: 19000000 INFO @ Sat, 15 Jan 2022 17:51:53: 26000000 INFO @ Sat, 15 Jan 2022 17:51:54: 18000000 INFO @ Sat, 15 Jan 2022 17:51:57: 20000000 INFO @ Sat, 15 Jan 2022 17:52:01: 27000000 INFO @ Sat, 15 Jan 2022 17:52:02: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:52:06: 21000000 INFO @ Sat, 15 Jan 2022 17:52:08: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:52:08: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:52:08: #1 total tags in treatment: 27862995 INFO @ Sat, 15 Jan 2022 17:52:08: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:52:08: #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 17:52:09: #1 tags after filtering in treatment: 27862831 INFO @ Sat, 15 Jan 2022 17:52:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:52:09: #1 finished! INFO @ Sat, 15 Jan 2022 17:52:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:52:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:52:10: 20000000 INFO @ Sat, 15 Jan 2022 17:52:14: #2 number of paired peaks: 89188 INFO @ Sat, 15 Jan 2022 17:52:14: start model_add_line... INFO @ Sat, 15 Jan 2022 17:52:14: start X-correlation... INFO @ Sat, 15 Jan 2022 17:52:14: end of X-cor INFO @ Sat, 15 Jan 2022 17:52:14: #2 finished! INFO @ Sat, 15 Jan 2022 17:52:14: #2 predicted fragment length is 215 bps INFO @ Sat, 15 Jan 2022 17:52:14: #2 alternative fragment length(s) may be 215 bps INFO @ Sat, 15 Jan 2022 17:52:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05_model.r INFO @ Sat, 15 Jan 2022 17:52:14: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:52:14: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:52:15: 22000000 INFO @ Sat, 15 Jan 2022 17:52:18: 21000000 INFO @ Sat, 15 Jan 2022 17:52:24: 23000000 INFO @ Sat, 15 Jan 2022 17:52:26: 22000000 INFO @ Sat, 15 Jan 2022 17:52:33: 24000000 INFO @ Sat, 15 Jan 2022 17:52:33: 23000000 INFO @ Sat, 15 Jan 2022 17:52:41: 24000000 INFO @ Sat, 15 Jan 2022 17:52:42: 25000000 INFO @ Sat, 15 Jan 2022 17:52:49: 25000000 INFO @ Sat, 15 Jan 2022 17:52:50: 26000000 INFO @ Sat, 15 Jan 2022 17:52:57: 26000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:52:59: 27000000 INFO @ Sat, 15 Jan 2022 17:53:05: 27000000 INFO @ Sat, 15 Jan 2022 17:53:07: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:53:07: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:53:07: #1 total tags in treatment: 27862995 INFO @ Sat, 15 Jan 2022 17:53:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:53:07: #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 17:53:08: #1 tags after filtering in treatment: 27862831 INFO @ Sat, 15 Jan 2022 17:53:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:53:08: #1 finished! INFO @ Sat, 15 Jan 2022 17:53:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:53:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:53:12: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 17:53:12: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 17:53:12: #1 total tags in treatment: 27862995 INFO @ Sat, 15 Jan 2022 17:53:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:53:12: #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 17:53:12: #2 number of paired peaks: 89188 INFO @ Sat, 15 Jan 2022 17:53:12: start model_add_line... INFO @ Sat, 15 Jan 2022 17:53:12: #1 tags after filtering in treatment: 27862831 INFO @ Sat, 15 Jan 2022 17:53:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 17:53:12: #1 finished! INFO @ Sat, 15 Jan 2022 17:53:12: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:53:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:53:13: start X-correlation... INFO @ Sat, 15 Jan 2022 17:53:13: end of X-cor INFO @ Sat, 15 Jan 2022 17:53:13: #2 finished! INFO @ Sat, 15 Jan 2022 17:53:13: #2 predicted fragment length is 215 bps INFO @ Sat, 15 Jan 2022 17:53:13: #2 alternative fragment length(s) may be 215 bps INFO @ Sat, 15 Jan 2022 17:53:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10_model.r INFO @ Sat, 15 Jan 2022 17:53:13: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:53:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:53:17: #2 number of paired peaks: 89188 INFO @ Sat, 15 Jan 2022 17:53:17: start model_add_line... INFO @ Sat, 15 Jan 2022 17:53:18: start X-correlation... INFO @ Sat, 15 Jan 2022 17:53:18: end of X-cor INFO @ Sat, 15 Jan 2022 17:53:18: #2 finished! INFO @ Sat, 15 Jan 2022 17:53:18: #2 predicted fragment length is 215 bps INFO @ Sat, 15 Jan 2022 17:53:18: #2 alternative fragment length(s) may be 215 bps INFO @ Sat, 15 Jan 2022 17:53:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20_model.r INFO @ Sat, 15 Jan 2022 17:53:18: #3 Call peaks... INFO @ Sat, 15 Jan 2022 17:53:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 17:53:23: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:54:03: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05_peaks.xls INFO @ Sat, 15 Jan 2022 17:54:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:54:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.05_summits.bed INFO @ Sat, 15 Jan 2022 17:54:04: Done! pass1 - making usageList (113 chroms): 5 millis pass2 - checking and writing primary data (32981 records, 4 fields): 33 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:54:19: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:54:24: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 17:54:56: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10_peaks.xls INFO @ Sat, 15 Jan 2022 17:54:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:54:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.10_summits.bed INFO @ Sat, 15 Jan 2022 17:54:58: Done! pass1 - making usageList (91 chroms): 4 millis pass2 - checking and writing primary data (22178 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:55:01: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20_peaks.xls INFO @ Sat, 15 Jan 2022 17:55:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 17:55:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX6581744/SRX6581744.20_summits.bed INFO @ Sat, 15 Jan 2022 17:55:01: Done! pass1 - making usageList (66 chroms): 3 millis pass2 - checking and writing primary data (13926 records, 4 fields): 19 millis CompletedMACS2peakCalling