Job ID = 6366657 SRX = SRX216757 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-15T22:53:26 prefetch.2.10.7: 1) Downloading 'SRR648392'... 2020-06-15T22:53:26 prefetch.2.10.7: Downloading via HTTPS... 2020-06-15T22:54:10 prefetch.2.10.7: HTTPS download succeed 2020-06-15T22:54:11 prefetch.2.10.7: 'SRR648392' is valid 2020-06-15T22:54:11 prefetch.2.10.7: 1) 'SRR648392' was downloaded successfully Read 5898500 spots for SRR648392/SRR648392.sra Written 5898500 spots for SRR648392/SRR648392.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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:09 5898500 reads; of these: 5898500 (100.00%) were unpaired; of these: 814793 (13.81%) aligned 0 times 4610123 (78.16%) aligned exactly 1 time 473584 (8.03%) aligned >1 times 86.19% overall alignment rate Time searching: 00:01:09 Overall time: 00:01:09 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_rmdupse_core] 992875 / 5083707 = 0.1953 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 @ Tue, 16 Jun 2020 07:57:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.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 @ Tue, 16 Jun 2020 07:57:25: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:57:25: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:57:30: 1000000 INFO @ Tue, 16 Jun 2020 07:57:36: 2000000 INFO @ Tue, 16 Jun 2020 07:57:42: 3000000 INFO @ Tue, 16 Jun 2020 07:57:47: 4000000 INFO @ Tue, 16 Jun 2020 07:57:48: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 07:57:48: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 07:57:48: #1 total tags in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:57:48: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:57:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 07:57:48: #1 tags after filtering in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:57:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:57:48: #1 finished! INFO @ Tue, 16 Jun 2020 07:57:48: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:57:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:57:48: #2 number of paired peaks: 1786 INFO @ Tue, 16 Jun 2020 07:57:48: start model_add_line... INFO @ Tue, 16 Jun 2020 07:57:48: start X-correlation... INFO @ Tue, 16 Jun 2020 07:57:48: end of X-cor INFO @ Tue, 16 Jun 2020 07:57:48: #2 finished! INFO @ Tue, 16 Jun 2020 07:57:48: #2 predicted fragment length is 184 bps INFO @ Tue, 16 Jun 2020 07:57:48: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 16 Jun 2020 07:57:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05_model.r INFO @ Tue, 16 Jun 2020 07:57:48: #3 Call peaks... INFO @ Tue, 16 Jun 2020 07:57:48: #3 Pre-compute pvalue-qvalue table... 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 @ Tue, 16 Jun 2020 07:57:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.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 @ Tue, 16 Jun 2020 07:57:54: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:57:54: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:57:59: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 07:58:01: 1000000 INFO @ Tue, 16 Jun 2020 07:58:05: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05_peaks.xls INFO @ Tue, 16 Jun 2020 07:58:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 07:58:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.05_summits.bed INFO @ Tue, 16 Jun 2020 07:58:05: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4178 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:58:08: 2000000 INFO @ Tue, 16 Jun 2020 07:58:14: 3000000 INFO @ Tue, 16 Jun 2020 07:58:21: 4000000 INFO @ Tue, 16 Jun 2020 07:58:21: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 07:58:21: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 07:58:21: #1 total tags in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:58:21: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:58:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 07:58:21: #1 tags after filtering in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:58:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:58:21: #1 finished! INFO @ Tue, 16 Jun 2020 07:58:21: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:58:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:58:22: #2 number of paired peaks: 1786 INFO @ Tue, 16 Jun 2020 07:58:22: start model_add_line... INFO @ Tue, 16 Jun 2020 07:58:22: start X-correlation... INFO @ Tue, 16 Jun 2020 07:58:22: end of X-cor INFO @ Tue, 16 Jun 2020 07:58:22: #2 finished! INFO @ Tue, 16 Jun 2020 07:58:22: #2 predicted fragment length is 184 bps INFO @ Tue, 16 Jun 2020 07:58:22: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 16 Jun 2020 07:58:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10_model.r INFO @ Tue, 16 Jun 2020 07:58:22: #3 Call peaks... INFO @ Tue, 16 Jun 2020 07:58:22: #3 Pre-compute pvalue-qvalue table... 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 @ Tue, 16 Jun 2020 07:58:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.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 @ Tue, 16 Jun 2020 07:58:24: #1 read tag files... INFO @ Tue, 16 Jun 2020 07:58:24: #1 read treatment tags... INFO @ Tue, 16 Jun 2020 07:58:30: 1000000 INFO @ Tue, 16 Jun 2020 07:58:32: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 07:58:36: 2000000 INFO @ Tue, 16 Jun 2020 07:58:37: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10_peaks.xls INFO @ Tue, 16 Jun 2020 07:58:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 07:58:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.10_summits.bed INFO @ Tue, 16 Jun 2020 07:58:37: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (2295 records, 4 fields): 4 millis CompletedMACS2peakCalling INFO @ Tue, 16 Jun 2020 07:58:42: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 16 Jun 2020 07:58:48: 4000000 INFO @ Tue, 16 Jun 2020 07:58:49: #1 tag size is determined as 50 bps INFO @ Tue, 16 Jun 2020 07:58:49: #1 tag size = 50 INFO @ Tue, 16 Jun 2020 07:58:49: #1 total tags in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:58:49: #1 user defined the maximum tags... INFO @ Tue, 16 Jun 2020 07:58:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 16 Jun 2020 07:58:49: #1 tags after filtering in treatment: 4090832 INFO @ Tue, 16 Jun 2020 07:58:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 16 Jun 2020 07:58:49: #1 finished! INFO @ Tue, 16 Jun 2020 07:58:49: #2 Build Peak Model... INFO @ Tue, 16 Jun 2020 07:58:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 16 Jun 2020 07:58:49: #2 number of paired peaks: 1786 INFO @ Tue, 16 Jun 2020 07:58:49: start model_add_line... INFO @ Tue, 16 Jun 2020 07:58:49: start X-correlation... INFO @ Tue, 16 Jun 2020 07:58:49: end of X-cor INFO @ Tue, 16 Jun 2020 07:58:49: #2 finished! INFO @ Tue, 16 Jun 2020 07:58:49: #2 predicted fragment length is 184 bps INFO @ Tue, 16 Jun 2020 07:58:49: #2 alternative fragment length(s) may be 184 bps INFO @ Tue, 16 Jun 2020 07:58:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20_model.r INFO @ Tue, 16 Jun 2020 07:58:49: #3 Call peaks... INFO @ Tue, 16 Jun 2020 07:58:49: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 16 Jun 2020 07:59:00: #3 Call peaks for each chromosome... INFO @ Tue, 16 Jun 2020 07:59:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20_peaks.xls INFO @ Tue, 16 Jun 2020 07:59:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20_peaks.narrowPeak INFO @ Tue, 16 Jun 2020 07:59:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX216757/SRX216757.20_summits.bed INFO @ Tue, 16 Jun 2020 07:59:06: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (945 records, 4 fields): 2 millis CompletedMACS2peakCalling