Job ID = 14157915 SRX = SRX6717208 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18106639 spots for SRR9969880/SRR9969880.sra Written 18106639 spots for SRR9969880/SRR9969880.sra fastq に変換しました。 bowtie でマッピング中... Your job 14158130 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:27 18106639 reads; of these: 18106639 (100.00%) were unpaired; of these: 16948629 (93.60%) aligned 0 times 1058391 (5.85%) aligned exactly 1 time 99619 (0.55%) aligned >1 times 6.40% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:30 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] 412838 / 1158010 = 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 12:52:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 12:52:36: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:52:36: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:52:41: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:52:41: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:52:41: #1 total tags in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:52:41: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:52:41: #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 12:52:41: #1 tags after filtering in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:52:41: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:52:41: #1 finished! INFO @ Wed, 08 Dec 2021 12:52:41: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:52:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:52:41: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 12:52:41: start model_add_line... INFO @ Wed, 08 Dec 2021 12:52:41: start X-correlation... INFO @ Wed, 08 Dec 2021 12:52:42: end of X-cor INFO @ Wed, 08 Dec 2021 12:52:42: #2 finished! INFO @ Wed, 08 Dec 2021 12:52:42: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 12:52:42: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 12:52:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05_model.r INFO @ Wed, 08 Dec 2021 12:52:42: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:52:42: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:52:43: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:52:44: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05_peaks.xls INFO @ Wed, 08 Dec 2021 12:52:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:52:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.05_summits.bed INFO @ Wed, 08 Dec 2021 12:52:45: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (5617 records, 4 fields): 6 millis CompletedMACS2peakCalling BedGraph に変換中... BedGraph に変換しました。 BigWig 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 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 12:53:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 12:53:39: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:53:39: #1 read treatment tags... INFO @ Wed, 08 Dec 2021 12:53:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 12:53:39: #1 read tag files... INFO @ Wed, 08 Dec 2021 12:53:39: #1 read treatment tags... BigWig に変換しました。 INFO @ Wed, 08 Dec 2021 12:53:46: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:53:46: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:53:46: #1 total tags in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:53:46: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:53:46: #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 12:53:46: #1 tags after filtering in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:53:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:53:46: #1 finished! INFO @ Wed, 08 Dec 2021 12:53:46: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:53:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:53:46: #1 tag size is determined as 76 bps INFO @ Wed, 08 Dec 2021 12:53:46: #1 tag size = 76 INFO @ Wed, 08 Dec 2021 12:53:46: #1 total tags in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:53:46: #1 user defined the maximum tags... INFO @ Wed, 08 Dec 2021 12:53:46: #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 12:53:46: #1 tags after filtering in treatment: 745172 INFO @ Wed, 08 Dec 2021 12:53:46: #1 Redundant rate of treatment: 0.00 INFO @ Wed, 08 Dec 2021 12:53:46: #1 finished! INFO @ Wed, 08 Dec 2021 12:53:46: #2 Build Peak Model... INFO @ Wed, 08 Dec 2021 12:53:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 08 Dec 2021 12:53:46: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 12:53:46: start model_add_line... INFO @ Wed, 08 Dec 2021 12:53:46: start X-correlation... INFO @ Wed, 08 Dec 2021 12:53:46: end of X-cor INFO @ Wed, 08 Dec 2021 12:53:46: #2 finished! INFO @ Wed, 08 Dec 2021 12:53:46: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 12:53:46: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 12:53:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20_model.r INFO @ Wed, 08 Dec 2021 12:53:46: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:53:46: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:53:46: #2 number of paired peaks: 4765 INFO @ Wed, 08 Dec 2021 12:53:46: start model_add_line... INFO @ Wed, 08 Dec 2021 12:53:46: start X-correlation... INFO @ Wed, 08 Dec 2021 12:53:47: end of X-cor INFO @ Wed, 08 Dec 2021 12:53:47: #2 finished! INFO @ Wed, 08 Dec 2021 12:53:47: #2 predicted fragment length is 168 bps INFO @ Wed, 08 Dec 2021 12:53:47: #2 alternative fragment length(s) may be 168 bps INFO @ Wed, 08 Dec 2021 12:53:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10_model.r INFO @ Wed, 08 Dec 2021 12:53:47: #3 Call peaks... INFO @ Wed, 08 Dec 2021 12:53:47: #3 Pre-compute pvalue-qvalue table... INFO @ Wed, 08 Dec 2021 12:53:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:53:48: #3 Call peaks for each chromosome... INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20_peaks.xls INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.20_summits.bed INFO @ Wed, 08 Dec 2021 12:53:49: Done! INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10_peaks.xls INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10_peaks.narrowPeak INFO @ Wed, 08 Dec 2021 12:53:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6717208/SRX6717208.10_summits.bed INFO @ Wed, 08 Dec 2021 12:53:49: Done! pass1 - making usageList (6 chroms): 1 millis pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3312 records, 4 fields): 4 millis CompletedMACS2peakCalling pass2 - checking and writing primary data (1610 records, 4 fields): 33 millis CompletedMACS2peakCalling