Job ID = 10165714 SRX = SRX8832077 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15577553 spots for SRR12332019/SRR12332019.sra Written 15577553 spots for SRR12332019/SRR12332019.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165825 ("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: 00:02:26 15577553 reads; of these: 15577553 (100.00%) were unpaired; of these: 9965496 (63.97%) aligned 0 times 3042627 (19.53%) aligned exactly 1 time 2569430 (16.49%) aligned >1 times 36.03% overall alignment rate Time searching: 00:02:26 Overall time: 00:02:26 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] 2253977 / 5612057 = 0.4016 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 @ Thu, 08 Oct 2020 19:40:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.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 @ Thu, 08 Oct 2020 19:40:00: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:40:00: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:40:05: 1000000 INFO @ Thu, 08 Oct 2020 19:40:11: 2000000 INFO @ Thu, 08 Oct 2020 19:40:16: 3000000 INFO @ Thu, 08 Oct 2020 19:40:18: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:40:18: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:40:18: #1 total tags in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:40:18: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:40:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:40:18: #1 tags after filtering in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:40:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:40:18: #1 finished! INFO @ Thu, 08 Oct 2020 19:40:18: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:40:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:40:18: #2 number of paired peaks: 4329 INFO @ Thu, 08 Oct 2020 19:40:18: start model_add_line... INFO @ Thu, 08 Oct 2020 19:40:18: start X-correlation... INFO @ Thu, 08 Oct 2020 19:40:18: end of X-cor INFO @ Thu, 08 Oct 2020 19:40:18: #2 finished! INFO @ Thu, 08 Oct 2020 19:40:18: #2 predicted fragment length is 120 bps INFO @ Thu, 08 Oct 2020 19:40:18: #2 alternative fragment length(s) may be 120 bps INFO @ Thu, 08 Oct 2020 19:40:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05_model.r INFO @ Thu, 08 Oct 2020 19:40:18: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:40:18: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:40:27: #3 Call peaks for each chromosome... 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 @ Thu, 08 Oct 2020 19:40:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.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 @ Thu, 08 Oct 2020 19:40:30: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:40:30: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:40:31: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:40:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:40:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.05_summits.bed INFO @ Thu, 08 Oct 2020 19:40:31: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5503 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:40:35: 1000000 INFO @ Thu, 08 Oct 2020 19:40:40: 2000000 INFO @ Thu, 08 Oct 2020 19:40:46: 3000000 INFO @ Thu, 08 Oct 2020 19:40:47: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:40:47: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:40:47: #1 total tags in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:40:47: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:40:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:40:48: #1 tags after filtering in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:40:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:40:48: #1 finished! INFO @ Thu, 08 Oct 2020 19:40:48: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:40:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:40:48: #2 number of paired peaks: 4329 INFO @ Thu, 08 Oct 2020 19:40:48: start model_add_line... INFO @ Thu, 08 Oct 2020 19:40:48: start X-correlation... INFO @ Thu, 08 Oct 2020 19:40:48: end of X-cor INFO @ Thu, 08 Oct 2020 19:40:48: #2 finished! INFO @ Thu, 08 Oct 2020 19:40:48: #2 predicted fragment length is 120 bps INFO @ Thu, 08 Oct 2020 19:40:48: #2 alternative fragment length(s) may be 120 bps INFO @ Thu, 08 Oct 2020 19:40:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10_model.r INFO @ Thu, 08 Oct 2020 19:40:48: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:40:48: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:40:57: #3 Call peaks for each chromosome... 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 @ Thu, 08 Oct 2020 19:41:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.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 @ Thu, 08 Oct 2020 19:41:00: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:41:00: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:41:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:41:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:41:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.10_summits.bed INFO @ Thu, 08 Oct 2020 19:41:01: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (3118 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:41:06: 1000000 INFO @ Thu, 08 Oct 2020 19:41:11: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:41:16: 3000000 INFO @ Thu, 08 Oct 2020 19:41:18: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:41:18: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:41:18: #1 total tags in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:41:18: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:41:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 19:41:18: #1 tags after filtering in treatment: 3358080 INFO @ Thu, 08 Oct 2020 19:41:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:41:18: #1 finished! INFO @ Thu, 08 Oct 2020 19:41:18: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:41:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:41:19: #2 number of paired peaks: 4329 INFO @ Thu, 08 Oct 2020 19:41:19: start model_add_line... INFO @ Thu, 08 Oct 2020 19:41:19: start X-correlation... INFO @ Thu, 08 Oct 2020 19:41:19: end of X-cor INFO @ Thu, 08 Oct 2020 19:41:19: #2 finished! INFO @ Thu, 08 Oct 2020 19:41:19: #2 predicted fragment length is 120 bps INFO @ Thu, 08 Oct 2020 19:41:19: #2 alternative fragment length(s) may be 120 bps INFO @ Thu, 08 Oct 2020 19:41:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20_model.r INFO @ Thu, 08 Oct 2020 19:41:19: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:41:19: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:41:28: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:41:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:41:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:41:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832077/SRX8832077.20_summits.bed INFO @ Thu, 08 Oct 2020 19:41:32: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (1210 records, 4 fields): 4 millis CompletedMACS2peakCalling