Job ID = 14158105 SRX = SRX6717202 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: 00:00:19 2315690 reads; of these: 2315690 (100.00%) were unpaired; of these: 2156592 (93.13%) aligned 0 times 143567 (6.20%) aligned exactly 1 time 15531 (0.67%) aligned >1 times 6.87% overall alignment rate Time searching: 00:00:19 Overall time: 00:00:19 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] 30321 / 159098 = 0.1906 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 14:23:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.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 14:23:32: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:23:32: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:23:33: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:23:33: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:23:33: #1 total tags in treatment: 128777 INFO @ Wed, 08 Dec 2021 14:23:33: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:23:33: #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 14:23:33: #1 tags after filtering in treatment: 128776 INFO @ Wed, 08 Dec 2021 14:23:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:23:33: #1 finished! INFO @ Wed, 08 Dec 2021 14:23:33: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:23:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:23:33: #2 number of paired peaks: 4506 INFO @ Wed, 08 Dec 2021 14:23:33: start model_add_line... INFO @ Wed, 08 Dec 2021 14:23:33: start X-correlation... INFO @ Wed, 08 Dec 2021 14:23:33: end of X-cor INFO @ Wed, 08 Dec 2021 14:23:33: #2 finished! INFO @ Wed, 08 Dec 2021 14:23:33: #2 predicted fragment length is 308 bps INFO @ Wed, 08 Dec 2021 14:23:33: #2 alternative fragment length(s) may be 308 bps INFO @ Wed, 08 Dec 2021 14:23:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05_model.r INFO @ Wed, 08 Dec 2021 14:23:33: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:23:33: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:23:34: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:23:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05_peaks.xls INFO @ Wed, 08 Dec 2021 14:23:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:23:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.05_summits.bed INFO @ Wed, 08 Dec 2021 14:23:34: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (509 records, 4 fields): 2 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 14:24:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.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 14:24:02: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:24:02: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:24:03: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:24:03: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:24:03: #1 total tags in treatment: 128777 INFO @ Wed, 08 Dec 2021 14:24:03: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:24:03: #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 14:24:03: #1 tags after filtering in treatment: 128776 INFO @ Wed, 08 Dec 2021 14:24:03: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:24:03: #1 finished! INFO @ Wed, 08 Dec 2021 14:24:03: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:24:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:24:03: #2 number of paired peaks: 4506 INFO @ Wed, 08 Dec 2021 14:24:03: start model_add_line... INFO @ Wed, 08 Dec 2021 14:24:03: start X-correlation... INFO @ Wed, 08 Dec 2021 14:24:03: end of X-cor INFO @ Wed, 08 Dec 2021 14:24:03: #2 finished! INFO @ Wed, 08 Dec 2021 14:24:03: #2 predicted fragment length is 308 bps INFO @ Wed, 08 Dec 2021 14:24:03: #2 alternative fragment length(s) may be 308 bps INFO @ Wed, 08 Dec 2021 14:24:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10_model.r INFO @ Wed, 08 Dec 2021 14:24:03: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:24:03: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:24:04: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:24:04: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10_peaks.xls INFO @ Wed, 08 Dec 2021 14:24:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:24:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.10_summits.bed INFO @ Wed, 08 Dec 2021 14:24:04: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (121 records, 4 fields): 1 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 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 14:24:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.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 14:24:32: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:24:32: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:24:33: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:24:33: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:24:33: #1 total tags in treatment: 128777 INFO @ Wed, 08 Dec 2021 14:24:33: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:24:33: #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 14:24:33: #1 tags after filtering in treatment: 128776 INFO @ Wed, 08 Dec 2021 14:24:33: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:24:33: #1 finished! INFO @ Wed, 08 Dec 2021 14:24:33: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:24:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:24:33: #2 number of paired peaks: 4506 INFO @ Wed, 08 Dec 2021 14:24:33: start model_add_line... INFO @ Wed, 08 Dec 2021 14:24:33: start X-correlation... INFO @ Wed, 08 Dec 2021 14:24:33: end of X-cor INFO @ Wed, 08 Dec 2021 14:24:33: #2 finished! INFO @ Wed, 08 Dec 2021 14:24:33: #2 predicted fragment length is 308 bps INFO @ Wed, 08 Dec 2021 14:24:33: #2 alternative fragment length(s) may be 308 bps INFO @ Wed, 08 Dec 2021 14:24:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20_model.r INFO @ Wed, 08 Dec 2021 14:24:33: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:24:33: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:24:34: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:24:34: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20_peaks.xls INFO @ Wed, 08 Dec 2021 14:24:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:24:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717202/SRX6717202.20_summits.bed INFO @ Wed, 08 Dec 2021 14:24:34: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (20 records, 4 fields): 2 millis CompletedMACS2peakCalling