Job ID = 14158118 SRX = SRX6717209 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: 00:01:27 13059725 reads; of these: 13059725 (100.00%) were unpaired; of these: 12127612 (92.86%) aligned 0 times 802895 (6.15%) aligned exactly 1 time 129218 (0.99%) aligned >1 times 7.14% overall alignment rate Time searching: 00:01:27 Overall time: 00:01:27 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] 211270 / 932113 = 0.2267 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:30:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.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 @ Wed, 08 Dec 2021 14:30:47: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:30:47: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:30:50: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 14:30:50: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 14:30:50: #1 total tags in treatment: 720843 INFO @ Wed, 08 Dec 2021 14:30:50: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:30:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:30:50: #1 tags after filtering in treatment: 720842 INFO @ Wed, 08 Dec 2021 14:30:50: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:30:50: #1 finished! INFO @ Wed, 08 Dec 2021 14:30:50: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:30:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:30:50: #2 number of paired peaks: 3045 INFO @ Wed, 08 Dec 2021 14:30:50: start model_add_line... INFO @ Wed, 08 Dec 2021 14:30:50: start X-correlation... INFO @ Wed, 08 Dec 2021 14:30:50: end of X-cor INFO @ Wed, 08 Dec 2021 14:30:50: #2 finished! INFO @ Wed, 08 Dec 2021 14:30:50: #2 predicted fragment length is 117 bps INFO @ Wed, 08 Dec 2021 14:30:50: #2 alternative fragment length(s) may be 117 bps INFO @ Wed, 08 Dec 2021 14:30:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05_model.r INFO @ Wed, 08 Dec 2021 14:30:50: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:30:50: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:30:52: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:30:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05_peaks.xls INFO @ Wed, 08 Dec 2021 14:30:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:30:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.05_summits.bed INFO @ Wed, 08 Dec 2021 14:30:53: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3427 records, 4 fields): 4 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:31:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.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 @ Wed, 08 Dec 2021 14:31:16: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:31:16: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:31:20: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 14:31:20: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 14:31:20: #1 total tags in treatment: 720843 INFO @ Wed, 08 Dec 2021 14:31:20: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:31:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:31:20: #1 tags after filtering in treatment: 720842 INFO @ Wed, 08 Dec 2021 14:31:20: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:31:20: #1 finished! INFO @ Wed, 08 Dec 2021 14:31:20: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:31:20: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:31:20: #2 number of paired peaks: 3045 INFO @ Wed, 08 Dec 2021 14:31:20: start model_add_line... INFO @ Wed, 08 Dec 2021 14:31:20: start X-correlation... INFO @ Wed, 08 Dec 2021 14:31:20: end of X-cor INFO @ Wed, 08 Dec 2021 14:31:20: #2 finished! INFO @ Wed, 08 Dec 2021 14:31:20: #2 predicted fragment length is 117 bps INFO @ Wed, 08 Dec 2021 14:31:20: #2 alternative fragment length(s) may be 117 bps INFO @ Wed, 08 Dec 2021 14:31:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10_model.r INFO @ Wed, 08 Dec 2021 14:31:20: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:31:20: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:31:22: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:31:22: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10_peaks.xls INFO @ Wed, 08 Dec 2021 14:31:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:31:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.10_summits.bed INFO @ Wed, 08 Dec 2021 14:31:22: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1522 records, 4 fields): 3 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Wed, 08 Dec 2021 14:31:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.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 @ Wed, 08 Dec 2021 14:31:46: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:31:46: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 14:31:50: #1 tag size is determined as 51 bps INFO @ Wed, 08 Dec 2021 14:31:50: #1 tag size = 51 INFO @ Wed, 08 Dec 2021 14:31:50: #1 total tags in treatment: 720843 INFO @ Wed, 08 Dec 2021 14:31:50: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:31:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 08 Dec 2021 14:31:50: #1 tags after filtering in treatment: 720842 INFO @ Wed, 08 Dec 2021 14:31:50: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:31:50: #1 finished! INFO @ Wed, 08 Dec 2021 14:31:50: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:31:50: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:31:50: #2 number of paired peaks: 3045 INFO @ Wed, 08 Dec 2021 14:31:50: start model_add_line... INFO @ Wed, 08 Dec 2021 14:31:50: start X-correlation... INFO @ Wed, 08 Dec 2021 14:31:50: end of X-cor INFO @ Wed, 08 Dec 2021 14:31:50: #2 finished! INFO @ Wed, 08 Dec 2021 14:31:50: #2 predicted fragment length is 117 bps INFO @ Wed, 08 Dec 2021 14:31:50: #2 alternative fragment length(s) may be 117 bps INFO @ Wed, 08 Dec 2021 14:31:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20_model.r INFO @ Wed, 08 Dec 2021 14:31:50: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:31:50: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:31:52: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:31:53: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20_peaks.xls INFO @ Wed, 08 Dec 2021 14:31:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:31:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717209/SRX6717209.20_summits.bed INFO @ Wed, 08 Dec 2021 14:31:53: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (536 records, 4 fields): 1 millis CompletedMACS2peakCalling