Job ID = 6497480 SRX = SRX494981 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:18:45 prefetch.2.10.7: 1) Downloading 'SRR1198513'... 2020-06-25T22:18:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:20:10 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:20:11 prefetch.2.10.7: 'SRR1198513' is valid 2020-06-25T22:20:11 prefetch.2.10.7: 1) 'SRR1198513' was downloaded successfully Read 11474202 spots for SRR1198513/SRR1198513.sra Written 11474202 spots for SRR1198513/SRR1198513.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: 00:01:47 11474202 reads; of these: 11474202 (100.00%) were unpaired; of these: 2187574 (19.07%) aligned 0 times 6610649 (57.61%) aligned exactly 1 time 2675979 (23.32%) aligned >1 times 80.93% overall alignment rate Time searching: 00:01:47 Overall time: 00:01:47 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] 1305883 / 9286628 = 0.1406 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 @ Fri, 26 Jun 2020 07:24:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.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 @ Fri, 26 Jun 2020 07:24:54: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:24:54: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:25:00: 1000000 INFO @ Fri, 26 Jun 2020 07:25:06: 2000000 INFO @ Fri, 26 Jun 2020 07:25:12: 3000000 INFO @ Fri, 26 Jun 2020 07:25:18: 4000000 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 @ Fri, 26 Jun 2020 07:25:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.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 @ Fri, 26 Jun 2020 07:25:23: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:25:23: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:25:24: 5000000 INFO @ Fri, 26 Jun 2020 07:25:30: 1000000 INFO @ Fri, 26 Jun 2020 07:25:31: 6000000 INFO @ Fri, 26 Jun 2020 07:25:37: 2000000 INFO @ Fri, 26 Jun 2020 07:25:38: 7000000 INFO @ Fri, 26 Jun 2020 07:25:44: 3000000 INFO @ Fri, 26 Jun 2020 07:25:45: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:25:45: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:25:45: #1 total tags in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:25:45: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:25:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:25:45: #1 tags after filtering in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:25:45: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:25:45: #1 finished! INFO @ Fri, 26 Jun 2020 07:25:45: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:25:45: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:25:46: #2 number of paired peaks: 1848 INFO @ Fri, 26 Jun 2020 07:25:46: start model_add_line... INFO @ Fri, 26 Jun 2020 07:25:46: start X-correlation... INFO @ Fri, 26 Jun 2020 07:25:46: end of X-cor INFO @ Fri, 26 Jun 2020 07:25:46: #2 finished! INFO @ Fri, 26 Jun 2020 07:25:46: #2 predicted fragment length is 132 bps INFO @ Fri, 26 Jun 2020 07:25:46: #2 alternative fragment length(s) may be 2,132,155 bps INFO @ Fri, 26 Jun 2020 07:25:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05_model.r INFO @ Fri, 26 Jun 2020 07:25:51: 4000000 BedGraph に変換中... INFO @ Fri, 26 Jun 2020 07:25:56: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:25:56: #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 @ Fri, 26 Jun 2020 07:25:57: 5000000 INFO @ Fri, 26 Jun 2020 07:25:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.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 @ Fri, 26 Jun 2020 07:25:58: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:25:58: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:26:04: 6000000 INFO @ Fri, 26 Jun 2020 07:26:04: 1000000 INFO @ Fri, 26 Jun 2020 07:26:10: 7000000 INFO @ Fri, 26 Jun 2020 07:26:11: 2000000 INFO @ Fri, 26 Jun 2020 07:26:16: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:26:16: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:26:16: #1 total tags in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:26:16: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:26:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:26:16: #1 tags after filtering in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:26:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:26:16: #1 finished! INFO @ Fri, 26 Jun 2020 07:26:16: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:26:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:26:16: #2 number of paired peaks: 1848 INFO @ Fri, 26 Jun 2020 07:26:16: start model_add_line... INFO @ Fri, 26 Jun 2020 07:26:17: start X-correlation... INFO @ Fri, 26 Jun 2020 07:26:17: end of X-cor INFO @ Fri, 26 Jun 2020 07:26:17: #2 finished! INFO @ Fri, 26 Jun 2020 07:26:17: #2 predicted fragment length is 132 bps INFO @ Fri, 26 Jun 2020 07:26:17: #2 alternative fragment length(s) may be 2,132,155 bps INFO @ Fri, 26 Jun 2020 07:26:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10_model.r INFO @ Fri, 26 Jun 2020 07:26:17: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:26:17: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:26:17: 3000000 INFO @ Fri, 26 Jun 2020 07:26:18: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:26:23: 4000000 INFO @ Fri, 26 Jun 2020 07:26:29: 5000000 INFO @ Fri, 26 Jun 2020 07:26:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:26:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:26:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.05_summits.bed INFO @ Fri, 26 Jun 2020 07:26:31: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2537 records, 4 fields): 4 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:26:35: 6000000 INFO @ Fri, 26 Jun 2020 07:26:38: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:26:41: 7000000 INFO @ Fri, 26 Jun 2020 07:26:46: #1 tag size is determined as 28 bps INFO @ Fri, 26 Jun 2020 07:26:46: #1 tag size = 28 INFO @ Fri, 26 Jun 2020 07:26:46: #1 total tags in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:26:46: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:26:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:26:46: #1 tags after filtering in treatment: 7980745 INFO @ Fri, 26 Jun 2020 07:26:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:26:46: #1 finished! INFO @ Fri, 26 Jun 2020 07:26:46: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:26:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:26:47: #2 number of paired peaks: 1848 INFO @ Fri, 26 Jun 2020 07:26:47: start model_add_line... INFO @ Fri, 26 Jun 2020 07:26:47: start X-correlation... INFO @ Fri, 26 Jun 2020 07:26:47: end of X-cor INFO @ Fri, 26 Jun 2020 07:26:47: #2 finished! INFO @ Fri, 26 Jun 2020 07:26:47: #2 predicted fragment length is 132 bps INFO @ Fri, 26 Jun 2020 07:26:47: #2 alternative fragment length(s) may be 2,132,155 bps INFO @ Fri, 26 Jun 2020 07:26:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20_model.r INFO @ Fri, 26 Jun 2020 07:26:47: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:26:47: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:26:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:26:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:26:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.10_summits.bed INFO @ Fri, 26 Jun 2020 07:26:49: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (896 records, 4 fields): 3 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:27:09: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:27:19: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:27:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:27:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494981/SRX494981.20_summits.bed INFO @ Fri, 26 Jun 2020 07:27:19: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (283 records, 4 fields): 1 millis CompletedMACS2peakCalling