Job ID = 6497549 SRX = SRX554722 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:12:45 prefetch.2.10.7: 1) Downloading 'SRR1301070'... 2020-06-25T22:12:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:13:20 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:13:20 prefetch.2.10.7: 'SRR1301070' is valid 2020-06-25T22:13:20 prefetch.2.10.7: 1) 'SRR1301070' was downloaded successfully Read 2981950 spots for SRR1301070/SRR1301070.sra Written 2981950 spots for SRR1301070/SRR1301070.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: 00:00:48 2981950 reads; of these: 2981950 (100.00%) were unpaired; of these: 112145 (3.76%) aligned 0 times 2493673 (83.63%) aligned exactly 1 time 376132 (12.61%) aligned >1 times 96.24% overall alignment rate Time searching: 00:00:48 Overall time: 00:00:48 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] 736060 / 2869805 = 0.2565 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 07:15:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.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 07:15:40: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:15:40: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:15:46: 1000000 INFO @ Fri, 26 Jun 2020 07:15:51: 2000000 INFO @ Fri, 26 Jun 2020 07:15:52: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:15:52: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:15:52: #1 total tags in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:15:52: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:15:52: #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 07:15:52: #1 tags after filtering in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:15:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:15:52: #1 finished! INFO @ Fri, 26 Jun 2020 07:15:52: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:15:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:15:52: #2 number of paired peaks: 2229 INFO @ Fri, 26 Jun 2020 07:15:52: start model_add_line... INFO @ Fri, 26 Jun 2020 07:15:52: start X-correlation... INFO @ Fri, 26 Jun 2020 07:15:52: end of X-cor INFO @ Fri, 26 Jun 2020 07:15:52: #2 finished! INFO @ Fri, 26 Jun 2020 07:15:52: #2 predicted fragment length is 167 bps INFO @ Fri, 26 Jun 2020 07:15:52: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 26 Jun 2020 07:15:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05_model.r INFO @ Fri, 26 Jun 2020 07:15:52: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:15:52: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:15:58: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:16:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:16:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:16:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.05_summits.bed INFO @ Fri, 26 Jun 2020 07:16:01: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1454 records, 4 fields): 3 millis CompletedMACS2peakCalling 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 07:16:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.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 07:16:10: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:16:10: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:16:17: 1000000 INFO @ Fri, 26 Jun 2020 07:16:24: 2000000 INFO @ Fri, 26 Jun 2020 07:16:25: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:16:25: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:16:25: #1 total tags in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:16:25: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:16:25: #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 07:16:25: #1 tags after filtering in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:16:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:16:25: #1 finished! INFO @ Fri, 26 Jun 2020 07:16:25: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:16:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:16:25: #2 number of paired peaks: 2229 INFO @ Fri, 26 Jun 2020 07:16:25: start model_add_line... INFO @ Fri, 26 Jun 2020 07:16:25: start X-correlation... INFO @ Fri, 26 Jun 2020 07:16:25: end of X-cor INFO @ Fri, 26 Jun 2020 07:16:25: #2 finished! INFO @ Fri, 26 Jun 2020 07:16:25: #2 predicted fragment length is 167 bps INFO @ Fri, 26 Jun 2020 07:16:25: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 26 Jun 2020 07:16:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10_model.r INFO @ Fri, 26 Jun 2020 07:16:25: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:16:25: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:16:31: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:16:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:16:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:16:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.10_summits.bed INFO @ Fri, 26 Jun 2020 07:16:33: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (602 records, 4 fields): 2 millis CompletedMACS2peakCalling 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 @ Fri, 26 Jun 2020 07:16:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.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 07:16:40: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:16:40: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:16:45: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:16:51: 2000000 INFO @ Fri, 26 Jun 2020 07:16:52: #1 tag size is determined as 51 bps INFO @ Fri, 26 Jun 2020 07:16:52: #1 tag size = 51 INFO @ Fri, 26 Jun 2020 07:16:52: #1 total tags in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:16:52: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:16:52: #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 07:16:52: #1 tags after filtering in treatment: 2133745 INFO @ Fri, 26 Jun 2020 07:16:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:16:52: #1 finished! INFO @ Fri, 26 Jun 2020 07:16:52: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:16:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:16:52: #2 number of paired peaks: 2229 INFO @ Fri, 26 Jun 2020 07:16:52: start model_add_line... INFO @ Fri, 26 Jun 2020 07:16:52: start X-correlation... INFO @ Fri, 26 Jun 2020 07:16:52: end of X-cor INFO @ Fri, 26 Jun 2020 07:16:52: #2 finished! INFO @ Fri, 26 Jun 2020 07:16:52: #2 predicted fragment length is 167 bps INFO @ Fri, 26 Jun 2020 07:16:52: #2 alternative fragment length(s) may be 167 bps INFO @ Fri, 26 Jun 2020 07:16:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20_model.r INFO @ Fri, 26 Jun 2020 07:16:52: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:16:52: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:16:57: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:17:00: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:17:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:17:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX554722/SRX554722.20_summits.bed INFO @ Fri, 26 Jun 2020 07:17:07: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (228 records, 4 fields): 2 millis CompletedMACS2peakCalling