Job ID = 10166015 SRX = SRX8832101 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:02 20187825 reads; of these: 20187825 (100.00%) were unpaired; of these: 3152455 (15.62%) aligned 0 times 14250768 (70.59%) aligned exactly 1 time 2784602 (13.79%) aligned >1 times 84.38% overall alignment rate Time searching: 00:04:02 Overall time: 00:04:02 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 8023996 / 17035370 = 0.4710 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:32:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:32:28: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:32:28: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:33: 1000000 INFO @ Thu, 08 Oct 2020 20:32:38: 2000000 INFO @ Thu, 08 Oct 2020 20:32:43: 3000000 INFO @ Thu, 08 Oct 2020 20:32:48: 4000000 INFO @ Thu, 08 Oct 2020 20:32:53: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:32:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:32:58: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:32:58: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:58: 6000000 INFO @ Thu, 08 Oct 2020 20:33:04: 1000000 INFO @ Thu, 08 Oct 2020 20:33:04: 7000000 INFO @ Thu, 08 Oct 2020 20:33:09: 2000000 INFO @ Thu, 08 Oct 2020 20:33:09: 8000000 INFO @ Thu, 08 Oct 2020 20:33:15: 3000000 INFO @ Thu, 08 Oct 2020 20:33:15: 9000000 INFO @ Thu, 08 Oct 2020 20:33:15: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:33:15: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:33:15: #1 total tags in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:33:15: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:33:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:33:15: #1 tags after filtering in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:33:15: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:33:15: #1 finished! INFO @ Thu, 08 Oct 2020 20:33:15: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:33:15: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:33:16: #2 number of paired peaks: 4995 INFO @ Thu, 08 Oct 2020 20:33:16: start model_add_line... INFO @ Thu, 08 Oct 2020 20:33:16: start X-correlation... INFO @ Thu, 08 Oct 2020 20:33:16: end of X-cor INFO @ Thu, 08 Oct 2020 20:33:16: #2 finished! INFO @ Thu, 08 Oct 2020 20:33:16: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 20:33:16: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 20:33:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05_model.r INFO @ Thu, 08 Oct 2020 20:33:16: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:33:16: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:33:20: 4000000 INFO @ Thu, 08 Oct 2020 20:33:25: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 08 Oct 2020 20:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.bam'] # control file = None # effective genome size = 9.00e+07 # 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 @ Thu, 08 Oct 2020 20:33:28: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:33:28: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:33:31: 6000000 INFO @ Thu, 08 Oct 2020 20:33:34: 1000000 INFO @ Thu, 08 Oct 2020 20:33:36: 7000000 INFO @ Thu, 08 Oct 2020 20:33:37: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:33:39: 2000000 INFO @ Thu, 08 Oct 2020 20:33:42: 8000000 INFO @ Thu, 08 Oct 2020 20:33:45: 3000000 INFO @ Thu, 08 Oct 2020 20:33:47: 9000000 INFO @ Thu, 08 Oct 2020 20:33:47: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:33:47: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:33:47: #1 total tags in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:33:47: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:33:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:33:48: #1 tags after filtering in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:33:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:33:48: #1 finished! INFO @ Thu, 08 Oct 2020 20:33:48: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:33:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:33:48: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:33:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:33:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.05_summits.bed INFO @ Thu, 08 Oct 2020 20:33:48: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (8939 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:33:48: #2 number of paired peaks: 4995 INFO @ Thu, 08 Oct 2020 20:33:48: start model_add_line... INFO @ Thu, 08 Oct 2020 20:33:49: start X-correlation... INFO @ Thu, 08 Oct 2020 20:33:49: end of X-cor INFO @ Thu, 08 Oct 2020 20:33:49: #2 finished! INFO @ Thu, 08 Oct 2020 20:33:49: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 20:33:49: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 20:33:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10_model.r INFO @ Thu, 08 Oct 2020 20:33:49: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:33:49: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:33:50: 4000000 INFO @ Thu, 08 Oct 2020 20:33:56: 5000000 INFO @ Thu, 08 Oct 2020 20:34:01: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:34:07: 7000000 INFO @ Thu, 08 Oct 2020 20:34:11: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:34:12: 8000000 INFO @ Thu, 08 Oct 2020 20:34:17: 9000000 INFO @ Thu, 08 Oct 2020 20:34:17: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:34:17: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:34:17: #1 total tags in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:34:17: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:34:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 20:34:17: #1 tags after filtering in treatment: 9011374 INFO @ Thu, 08 Oct 2020 20:34:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:34:17: #1 finished! INFO @ Thu, 08 Oct 2020 20:34:17: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:34:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:34:18: #2 number of paired peaks: 4995 INFO @ Thu, 08 Oct 2020 20:34:18: start model_add_line... INFO @ Thu, 08 Oct 2020 20:34:19: start X-correlation... INFO @ Thu, 08 Oct 2020 20:34:19: end of X-cor INFO @ Thu, 08 Oct 2020 20:34:19: #2 finished! INFO @ Thu, 08 Oct 2020 20:34:19: #2 predicted fragment length is 140 bps INFO @ Thu, 08 Oct 2020 20:34:19: #2 alternative fragment length(s) may be 140 bps INFO @ Thu, 08 Oct 2020 20:34:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20_model.r INFO @ Thu, 08 Oct 2020 20:34:19: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:34:19: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:34:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:34:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:34:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.10_summits.bed INFO @ Thu, 08 Oct 2020 20:34:22: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7293 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:34:41: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:34:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:34:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:34:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832101/SRX8832101.20_summits.bed INFO @ Thu, 08 Oct 2020 20:34:51: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5675 records, 4 fields): 7 millis CompletedMACS2peakCalling