Job ID = 14517944 SRX = SRX9596813 Genome = rn6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 39637509 spots for SRR13156651/SRR13156651.sra Written 39637509 spots for SRR13156651/SRR13156651.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: 00:00:02 Multiseed full-index search: 00:43:23 39637509 reads; of these: 39637509 (100.00%) were unpaired; of these: 7737298 (19.52%) aligned 0 times 25790006 (65.06%) aligned exactly 1 time 6110205 (15.42%) aligned >1 times 80.48% overall alignment rate Time searching: 00:43:29 Overall time: 00:43:29 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] 3388681 / 31900211 = 0.1062 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 07:24:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.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 07:24:51: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:24:51: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:25:00: 1000000 INFO @ Sat, 15 Jan 2022 07:25:09: 2000000 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 07:25:18: 3000000 INFO @ Sat, 15 Jan 2022 07:25:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.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 07:25:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:25:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:25:27: 4000000 INFO @ Sat, 15 Jan 2022 07:25:29: 1000000 INFO @ Sat, 15 Jan 2022 07:25:37: 5000000 INFO @ Sat, 15 Jan 2022 07:25:38: 2000000 INFO @ Sat, 15 Jan 2022 07:25:46: 3000000 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 07:25:47: 6000000 INFO @ Sat, 15 Jan 2022 07:25:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.bam -f BAM -g 2.15e9 -n /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.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 07:25:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 07:25:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 07:25:56: 4000000 INFO @ Sat, 15 Jan 2022 07:25:57: 7000000 INFO @ Sat, 15 Jan 2022 07:26:00: 1000000 INFO @ Sat, 15 Jan 2022 07:26:05: 5000000 INFO @ Sat, 15 Jan 2022 07:26:06: 8000000 INFO @ Sat, 15 Jan 2022 07:26:10: 2000000 INFO @ Sat, 15 Jan 2022 07:26:15: 6000000 INFO @ Sat, 15 Jan 2022 07:26:15: 9000000 INFO @ Sat, 15 Jan 2022 07:26:20: 3000000 INFO @ Sat, 15 Jan 2022 07:26:24: 7000000 INFO @ Sat, 15 Jan 2022 07:26:25: 10000000 INFO @ Sat, 15 Jan 2022 07:26:30: 4000000 INFO @ Sat, 15 Jan 2022 07:26:33: 8000000 INFO @ Sat, 15 Jan 2022 07:26:34: 11000000 INFO @ Sat, 15 Jan 2022 07:26:40: 5000000 INFO @ Sat, 15 Jan 2022 07:26:43: 9000000 INFO @ Sat, 15 Jan 2022 07:26:44: 12000000 INFO @ Sat, 15 Jan 2022 07:26:51: 6000000 INFO @ Sat, 15 Jan 2022 07:26:53: 10000000 INFO @ Sat, 15 Jan 2022 07:26:54: 13000000 INFO @ Sat, 15 Jan 2022 07:27:01: 7000000 INFO @ Sat, 15 Jan 2022 07:27:03: 11000000 INFO @ Sat, 15 Jan 2022 07:27:03: 14000000 INFO @ Sat, 15 Jan 2022 07:27:11: 8000000 INFO @ Sat, 15 Jan 2022 07:27:12: 12000000 INFO @ Sat, 15 Jan 2022 07:27:13: 15000000 INFO @ Sat, 15 Jan 2022 07:27:21: 13000000 INFO @ Sat, 15 Jan 2022 07:27:22: 9000000 INFO @ Sat, 15 Jan 2022 07:27:22: 16000000 INFO @ Sat, 15 Jan 2022 07:27:30: 14000000 INFO @ Sat, 15 Jan 2022 07:27:31: 17000000 INFO @ Sat, 15 Jan 2022 07:27:32: 10000000 INFO @ Sat, 15 Jan 2022 07:27:40: 15000000 INFO @ Sat, 15 Jan 2022 07:27:42: 18000000 INFO @ Sat, 15 Jan 2022 07:27:42: 11000000 INFO @ Sat, 15 Jan 2022 07:27:50: 16000000 INFO @ Sat, 15 Jan 2022 07:27:51: 19000000 INFO @ Sat, 15 Jan 2022 07:27:53: 12000000 INFO @ Sat, 15 Jan 2022 07:27:59: 17000000 INFO @ Sat, 15 Jan 2022 07:28:01: 20000000 INFO @ Sat, 15 Jan 2022 07:28:03: 13000000 INFO @ Sat, 15 Jan 2022 07:28:09: 18000000 INFO @ Sat, 15 Jan 2022 07:28:12: 21000000 INFO @ Sat, 15 Jan 2022 07:28:13: 14000000 INFO @ Sat, 15 Jan 2022 07:28:18: 19000000 INFO @ Sat, 15 Jan 2022 07:28:22: 22000000 INFO @ Sat, 15 Jan 2022 07:28:23: 15000000 INFO @ Sat, 15 Jan 2022 07:28:27: 20000000 INFO @ Sat, 15 Jan 2022 07:28:31: 23000000 INFO @ Sat, 15 Jan 2022 07:28:33: 16000000 INFO @ Sat, 15 Jan 2022 07:28:37: 21000000 INFO @ Sat, 15 Jan 2022 07:28:42: 24000000 INFO @ Sat, 15 Jan 2022 07:28:43: 17000000 INFO @ Sat, 15 Jan 2022 07:28:46: 22000000 INFO @ Sat, 15 Jan 2022 07:28:52: 25000000 INFO @ Sat, 15 Jan 2022 07:28:53: 18000000 INFO @ Sat, 15 Jan 2022 07:28:55: 23000000 INFO @ Sat, 15 Jan 2022 07:29:01: 26000000 INFO @ Sat, 15 Jan 2022 07:29:03: 19000000 INFO @ Sat, 15 Jan 2022 07:29:04: 24000000 INFO @ Sat, 15 Jan 2022 07:29:11: 27000000 INFO @ Sat, 15 Jan 2022 07:29:13: 20000000 INFO @ Sat, 15 Jan 2022 07:29:14: 25000000 INFO @ Sat, 15 Jan 2022 07:29:22: 28000000 INFO @ Sat, 15 Jan 2022 07:29:22: 21000000 INFO @ Sat, 15 Jan 2022 07:29:23: 26000000 INFO @ Sat, 15 Jan 2022 07:29:27: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:29:27: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:29:27: #1 total tags in treatment: 28511530 INFO @ Sat, 15 Jan 2022 07:29:27: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:29:27: #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 07:29:27: #1 tags after filtering in treatment: 28511419 INFO @ Sat, 15 Jan 2022 07:29:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:29:27: #1 finished! INFO @ Sat, 15 Jan 2022 07:29:27: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:29:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:29:31: #2 number of paired peaks: 14935 INFO @ Sat, 15 Jan 2022 07:29:31: start model_add_line... INFO @ Sat, 15 Jan 2022 07:29:31: start X-correlation... INFO @ Sat, 15 Jan 2022 07:29:31: end of X-cor INFO @ Sat, 15 Jan 2022 07:29:31: #2 finished! INFO @ Sat, 15 Jan 2022 07:29:31: #2 predicted fragment length is 165 bps INFO @ Sat, 15 Jan 2022 07:29:31: #2 alternative fragment length(s) may be 165 bps INFO @ Sat, 15 Jan 2022 07:29:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05_model.r INFO @ Sat, 15 Jan 2022 07:29:31: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:29:31: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 INFO @ Sat, 15 Jan 2022 07:29:32: 27000000 BigWig に変換中... INFO @ Sat, 15 Jan 2022 07:29:33: 22000000 INFO @ Sat, 15 Jan 2022 07:29:41: 28000000 INFO @ Sat, 15 Jan 2022 07:29:42: 23000000 INFO @ Sat, 15 Jan 2022 07:29:46: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:29:46: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:29:46: #1 total tags in treatment: 28511530 INFO @ Sat, 15 Jan 2022 07:29:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:29:46: #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 07:29:46: #1 tags after filtering in treatment: 28511419 INFO @ Sat, 15 Jan 2022 07:29:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:29:46: #1 finished! INFO @ Sat, 15 Jan 2022 07:29:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:29:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:29:50: #2 number of paired peaks: 14935 INFO @ Sat, 15 Jan 2022 07:29:50: start model_add_line... INFO @ Sat, 15 Jan 2022 07:29:50: start X-correlation... INFO @ Sat, 15 Jan 2022 07:29:50: end of X-cor INFO @ Sat, 15 Jan 2022 07:29:50: #2 finished! INFO @ Sat, 15 Jan 2022 07:29:50: #2 predicted fragment length is 165 bps INFO @ Sat, 15 Jan 2022 07:29:50: #2 alternative fragment length(s) may be 165 bps INFO @ Sat, 15 Jan 2022 07:29:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10_model.r INFO @ Sat, 15 Jan 2022 07:29:50: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:29:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:29:52: 24000000 INFO @ Sat, 15 Jan 2022 07:30:00: 25000000 INFO @ Sat, 15 Jan 2022 07:30:09: 26000000 INFO @ Sat, 15 Jan 2022 07:30:17: 27000000 INFO @ Sat, 15 Jan 2022 07:30:26: 28000000 INFO @ Sat, 15 Jan 2022 07:30:31: #1 tag size is determined as 75 bps INFO @ Sat, 15 Jan 2022 07:30:31: #1 tag size = 75 INFO @ Sat, 15 Jan 2022 07:30:31: #1 total tags in treatment: 28511530 INFO @ Sat, 15 Jan 2022 07:30:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 07:30:31: #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 07:30:32: #1 tags after filtering in treatment: 28511419 INFO @ Sat, 15 Jan 2022 07:30:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 15 Jan 2022 07:30:32: #1 finished! INFO @ Sat, 15 Jan 2022 07:30:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 07:30:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 07:30:35: #2 number of paired peaks: 14935 INFO @ Sat, 15 Jan 2022 07:30:35: start model_add_line... INFO @ Sat, 15 Jan 2022 07:30:36: start X-correlation... INFO @ Sat, 15 Jan 2022 07:30:36: end of X-cor INFO @ Sat, 15 Jan 2022 07:30:36: #2 finished! INFO @ Sat, 15 Jan 2022 07:30:36: #2 predicted fragment length is 165 bps INFO @ Sat, 15 Jan 2022 07:30:36: #2 alternative fragment length(s) may be 165 bps INFO @ Sat, 15 Jan 2022 07:30:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20_model.r INFO @ Sat, 15 Jan 2022 07:30:36: #3 Call peaks... INFO @ Sat, 15 Jan 2022 07:30:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 15 Jan 2022 07:31:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 07:31:22: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:31:52: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05_peaks.xls INFO @ Sat, 15 Jan 2022 07:31:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:31:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.05_summits.bed INFO @ Sat, 15 Jan 2022 07:31:52: Done! pass1 - making usageList (55 chroms): 1 millis pass2 - checking and writing primary data (4067 records, 4 fields): 54 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:32:08: #3 Call peaks for each chromosome... INFO @ Sat, 15 Jan 2022 07:32:09: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10_peaks.xls INFO @ Sat, 15 Jan 2022 07:32:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:32:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.10_summits.bed INFO @ Sat, 15 Jan 2022 07:32:09: Done! pass1 - making usageList (41 chroms): 1 millis pass2 - checking and writing primary data (1074 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 07:32:56: #4 Write output xls file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20_peaks.xls INFO @ Sat, 15 Jan 2022 07:32:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20_peaks.narrowPeak INFO @ Sat, 15 Jan 2022 07:32:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/rn6/SRX9596813/SRX9596813.20_summits.bed INFO @ Sat, 15 Jan 2022 07:32:56: Done! pass1 - making usageList (27 chroms): 1 millis pass2 - checking and writing primary data (302 records, 4 fields): 4 millis CompletedMACS2peakCalling