Job ID = 14158130 SRX = SRX6717208 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: 00:02:04 18106639 reads; of these: 18106639 (100.00%) were unpaired; of these: 16948541 (93.60%) aligned 0 times 1058477 (5.85%) aligned exactly 1 time 99621 (0.55%) aligned >1 times 6.40% overall alignment rate Time searching: 00:02:04 Overall time: 00:02:04 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] 412886 / 1158098 = 0.3565 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 14:35:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.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 14:35:10: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:35:10: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:35:15: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:35:15: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:35:15: #1 total tags in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:35:15: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:35:15: #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 14:35:15: #1 tags after filtering in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:35:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:35:15: #1 finished! INFO @ Wed, 08 Dec 2021 14:35:15: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:35:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:35:15: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 14:35:15: start model_add_line... INFO @ Wed, 08 Dec 2021 14:35:15: start X-correlation... INFO @ Wed, 08 Dec 2021 14:35:15: end of X-cor INFO @ Wed, 08 Dec 2021 14:35:15: #2 finished! INFO @ Wed, 08 Dec 2021 14:35:15: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 14:35:15: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 14:35:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05_model.r INFO @ Wed, 08 Dec 2021 14:35:15: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:35:15: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:35:17: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:35:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05_peaks.xls INFO @ Wed, 08 Dec 2021 14:35:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:35:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.05_summits.bed INFO @ Wed, 08 Dec 2021 14:35:18: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5617 records, 4 fields): 7 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 14:35:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.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 14:35:40: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:35:40: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 14:35:45: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:35:45: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:35:45: #1 total tags in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:35:45: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:35:45: #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 14:35:45: #1 tags after filtering in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:35:45: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:35:45: #1 finished! INFO @ Wed, 08 Dec 2021 14:35:45: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:35:45: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:35:45: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 14:35:45: start model_add_line... INFO @ Wed, 08 Dec 2021 14:35:45: start X-correlation... INFO @ Wed, 08 Dec 2021 14:35:45: end of X-cor INFO @ Wed, 08 Dec 2021 14:35:45: #2 finished! INFO @ Wed, 08 Dec 2021 14:35:45: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 14:35:45: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 14:35:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10_model.r INFO @ Wed, 08 Dec 2021 14:35:46: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:35:46: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:35:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:35:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10_peaks.xls INFO @ Wed, 08 Dec 2021 14:35:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:35:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.10_summits.bed INFO @ Wed, 08 Dec 2021 14:35:49: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3313 records, 4 fields): 4 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 14:36:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.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 14:36:10: #1 read tag files... INFO @ Wed, 08 Dec 2021 14:36:10: #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 14:36:15: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 14:36:15: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 14:36:15: #1 total tags in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:36:15: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 14:36:15: #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 14:36:15: #1 tags after filtering in treatment: 745212 INFO @ Wed, 08 Dec 2021 14:36:15: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 14:36:15: #1 finished! INFO @ Wed, 08 Dec 2021 14:36:15: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 14:36:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 14:36:15: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 14:36:15: start model_add_line... INFO @ Wed, 08 Dec 2021 14:36:15: start X-correlation... INFO @ Wed, 08 Dec 2021 14:36:15: end of X-cor INFO @ Wed, 08 Dec 2021 14:36:15: #2 finished! INFO @ Wed, 08 Dec 2021 14:36:15: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 14:36:15: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 14:36:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20_model.r INFO @ Wed, 08 Dec 2021 14:36:15: #3 Call peaks... INFO @ Wed, 08 Dec 2021 14:36:15: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 14:36:17: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 14:36:18: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20_peaks.xls INFO @ Wed, 08 Dec 2021 14:36:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 14:36:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX6717208/SRX6717208.20_summits.bed INFO @ Wed, 08 Dec 2021 14:36:18: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1610 records, 4 fields): 4 millis CompletedMACS2peakCalling