Job ID = 6497459 SRX = SRX494960 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:05:13 prefetch.2.10.7: 1) Downloading 'SRR1198492'... 2020-06-25T22:05:13 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:06:04 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:06:04 prefetch.2.10.7: 'SRR1198492' is valid 2020-06-25T22:06:04 prefetch.2.10.7: 1) 'SRR1198492' was downloaded successfully Read 4465444 spots for SRR1198492/SRR1198492.sra Written 4465444 spots for SRR1198492/SRR1198492.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: 00:01:03 4465444 reads; of these: 4465444 (100.00%) were unpaired; of these: 829466 (18.58%) aligned 0 times 2898290 (64.90%) aligned exactly 1 time 737688 (16.52%) aligned >1 times 81.42% overall alignment rate Time searching: 00:01:03 Overall time: 00:01:03 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] 884630 / 3635978 = 0.2433 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 07:10:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.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 07:10:39: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:10:39: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:10:46: 1000000 INFO @ Fri, 26 Jun 2020 07:10:52: 2000000 INFO @ Fri, 26 Jun 2020 07:10:58: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:10:58: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:10:58: #1 total tags in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:10:58: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:10:58: #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 07:10:58: #1 tags after filtering in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:10:58: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:10:58: #1 finished! INFO @ Fri, 26 Jun 2020 07:10:58: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:10:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:10:58: #2 number of paired peaks: 1887 INFO @ Fri, 26 Jun 2020 07:10:58: start model_add_line... INFO @ Fri, 26 Jun 2020 07:10:58: start X-correlation... INFO @ Fri, 26 Jun 2020 07:10:58: end of X-cor INFO @ Fri, 26 Jun 2020 07:10:58: #2 finished! INFO @ Fri, 26 Jun 2020 07:10:58: #2 predicted fragment length is 182 bps INFO @ Fri, 26 Jun 2020 07:10:58: #2 alternative fragment length(s) may be 182 bps INFO @ Fri, 26 Jun 2020 07:10:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05_model.r INFO @ Fri, 26 Jun 2020 07:11:03: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:11:03: #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 07:11:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.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 07:11:09: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:11:09: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:11:10: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:11:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:11:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:11:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.05_summits.bed INFO @ Fri, 26 Jun 2020 07:11:14: Done! pass1 - making usageList (6 chroms): 12 millis pass2 - checking and writing primary data (1785 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:11:16: 1000000 INFO @ Fri, 26 Jun 2020 07:11:22: 2000000 INFO @ Fri, 26 Jun 2020 07:11:28: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:11:28: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:11:28: #1 total tags in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:11:28: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:11:28: #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 07:11:28: #1 tags after filtering in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:11:28: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:11:28: #1 finished! INFO @ Fri, 26 Jun 2020 07:11:28: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:11:28: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:11:28: #2 number of paired peaks: 1887 INFO @ Fri, 26 Jun 2020 07:11:28: start model_add_line... INFO @ Fri, 26 Jun 2020 07:11:28: start X-correlation... INFO @ Fri, 26 Jun 2020 07:11:28: end of X-cor INFO @ Fri, 26 Jun 2020 07:11:28: #2 finished! INFO @ Fri, 26 Jun 2020 07:11:28: #2 predicted fragment length is 182 bps INFO @ Fri, 26 Jun 2020 07:11:28: #2 alternative fragment length(s) may be 182 bps INFO @ Fri, 26 Jun 2020 07:11:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10_model.r INFO @ Fri, 26 Jun 2020 07:11:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:11:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:11:35: #3 Call peaks for each chromosome... BedGraph に変換中... INFO @ Fri, 26 Jun 2020 07:11:39: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:11:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:11:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.10_summits.bed INFO @ Fri, 26 Jun 2020 07:11:40: Done! 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 (792 records, 4 fields): 3 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:11:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.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 07:11:42: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:11:42: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:11:49: 1000000 INFO @ Fri, 26 Jun 2020 07:11:56: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:12:01: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 07:12:01: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 07:12:01: #1 total tags in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:12:01: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:12:01: #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 07:12:01: #1 tags after filtering in treatment: 2751348 INFO @ Fri, 26 Jun 2020 07:12:01: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:12:01: #1 finished! INFO @ Fri, 26 Jun 2020 07:12:01: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:12:01: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:12:01: #2 number of paired peaks: 1887 INFO @ Fri, 26 Jun 2020 07:12:01: start model_add_line... INFO @ Fri, 26 Jun 2020 07:12:01: start X-correlation... INFO @ Fri, 26 Jun 2020 07:12:01: end of X-cor INFO @ Fri, 26 Jun 2020 07:12:01: #2 finished! INFO @ Fri, 26 Jun 2020 07:12:01: #2 predicted fragment length is 182 bps INFO @ Fri, 26 Jun 2020 07:12:01: #2 alternative fragment length(s) may be 182 bps INFO @ Fri, 26 Jun 2020 07:12:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20_model.r INFO @ Fri, 26 Jun 2020 07:12:01: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:12:01: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:12:08: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:12:12: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:12:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:12:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX494960/SRX494960.20_summits.bed INFO @ Fri, 26 Jun 2020 07:12:12: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (284 records, 4 fields): 2 millis CompletedMACS2peakCalling