Job ID = 10165923 SRX = SRX8832084 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: 00:01:32 10512220 reads; of these: 10512220 (100.00%) were unpaired; of these: 6030495 (57.37%) aligned 0 times 3775190 (35.91%) aligned exactly 1 time 706535 (6.72%) aligned >1 times 42.63% overall alignment rate Time searching: 00:01:32 Overall time: 00:01:32 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_rmdupse_core] 1625882 / 4481725 = 0.3628 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 20:13:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.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 20:13:27: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:13:27: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:13:32: 1000000 INFO @ Thu, 08 Oct 2020 20:13:37: 2000000 INFO @ Thu, 08 Oct 2020 20:13:42: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:13:42: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:13:42: #1 total tags in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:13:42: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:13:42: #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 20:13:42: #1 tags after filtering in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:13:42: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:13:42: #1 finished! INFO @ Thu, 08 Oct 2020 20:13:42: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:13:42: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:13:42: #2 number of paired peaks: 2011 INFO @ Thu, 08 Oct 2020 20:13:42: start model_add_line... INFO @ Thu, 08 Oct 2020 20:13:42: start X-correlation... INFO @ Thu, 08 Oct 2020 20:13:42: end of X-cor INFO @ Thu, 08 Oct 2020 20:13:42: #2 finished! INFO @ Thu, 08 Oct 2020 20:13:42: #2 predicted fragment length is 134 bps INFO @ Thu, 08 Oct 2020 20:13:42: #2 alternative fragment length(s) may be 134 bps INFO @ Thu, 08 Oct 2020 20:13:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05_model.r INFO @ Thu, 08 Oct 2020 20:13:42: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:13:42: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:13:50: #3 Call peaks for each chromosome... 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 20:13:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:13:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:13:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.05_summits.bed INFO @ Thu, 08 Oct 2020 20:13:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3976 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:13:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.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 20:13:57: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:13:57: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:14:02: 1000000 INFO @ Thu, 08 Oct 2020 20:14:07: 2000000 INFO @ Thu, 08 Oct 2020 20:14:11: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:14:11: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:14:11: #1 total tags in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:14:11: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:14:11: #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 20:14:11: #1 tags after filtering in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:14:11: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:14:11: #1 finished! INFO @ Thu, 08 Oct 2020 20:14:11: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:14:11: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:14:11: #2 number of paired peaks: 2011 INFO @ Thu, 08 Oct 2020 20:14:11: start model_add_line... INFO @ Thu, 08 Oct 2020 20:14:11: start X-correlation... INFO @ Thu, 08 Oct 2020 20:14:11: end of X-cor INFO @ Thu, 08 Oct 2020 20:14:11: #2 finished! INFO @ Thu, 08 Oct 2020 20:14:11: #2 predicted fragment length is 134 bps INFO @ Thu, 08 Oct 2020 20:14:11: #2 alternative fragment length(s) may be 134 bps INFO @ Thu, 08 Oct 2020 20:14:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10_model.r INFO @ Thu, 08 Oct 2020 20:14:12: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:14:12: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:14:19: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:14:23: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:14:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:14:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.10_summits.bed INFO @ Thu, 08 Oct 2020 20:14:23: Done! 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 pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2758 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:14:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.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 20:14:26: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:14:26: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:14:31: 1000000 INFO @ Thu, 08 Oct 2020 20:14:36: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:14:41: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 20:14:41: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 20:14:41: #1 total tags in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:14:41: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:14:41: #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 20:14:41: #1 tags after filtering in treatment: 2855843 INFO @ Thu, 08 Oct 2020 20:14:41: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:14:41: #1 finished! INFO @ Thu, 08 Oct 2020 20:14:41: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:14:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:14:41: #2 number of paired peaks: 2011 INFO @ Thu, 08 Oct 2020 20:14:41: start model_add_line... INFO @ Thu, 08 Oct 2020 20:14:41: start X-correlation... INFO @ Thu, 08 Oct 2020 20:14:41: end of X-cor INFO @ Thu, 08 Oct 2020 20:14:41: #2 finished! INFO @ Thu, 08 Oct 2020 20:14:41: #2 predicted fragment length is 134 bps INFO @ Thu, 08 Oct 2020 20:14:41: #2 alternative fragment length(s) may be 134 bps INFO @ Thu, 08 Oct 2020 20:14:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20_model.r INFO @ Thu, 08 Oct 2020 20:14:41: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:14:41: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:14:49: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:14:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:14:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:14:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832084/SRX8832084.20_summits.bed INFO @ Thu, 08 Oct 2020 20:14:53: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (1631 records, 4 fields): 4 millis CompletedMACS2peakCalling