Job ID = 10165706 SRX = SRX8832073 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 18990401 spots for SRR12332015/SRR12332015.sra Written 18990401 spots for SRR12332015/SRR12332015.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165875 ("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: 00:03:58 18990401 reads; of these: 18990401 (100.00%) were unpaired; of these: 7730660 (40.71%) aligned 0 times 6287845 (33.11%) aligned exactly 1 time 4971896 (26.18%) aligned >1 times 59.29% overall alignment rate Time searching: 00:03:58 Overall time: 00:03:58 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_sort_core] merging from 8 files... [bam_rmdupse_core] 4209141 / 11259741 = 0.3738 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 19:43:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.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 19:43:07: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:07: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:12: 1000000 INFO @ Thu, 08 Oct 2020 19:43:17: 2000000 INFO @ Thu, 08 Oct 2020 19:43:22: 3000000 INFO @ Thu, 08 Oct 2020 19:43:27: 4000000 INFO @ Thu, 08 Oct 2020 19:43:33: 5000000 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 19:43:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.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 19:43:37: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:37: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:38: 6000000 INFO @ Thu, 08 Oct 2020 19:43:42: 1000000 INFO @ Thu, 08 Oct 2020 19:43:43: 7000000 INFO @ Thu, 08 Oct 2020 19:43:44: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:43:44: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:43:44: #1 total tags in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:43:44: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:43:44: #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 19:43:44: #1 tags after filtering in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:43:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:43:44: #1 finished! INFO @ Thu, 08 Oct 2020 19:43:44: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:43:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:43:45: #2 number of paired peaks: 4870 INFO @ Thu, 08 Oct 2020 19:43:45: start model_add_line... INFO @ Thu, 08 Oct 2020 19:43:45: start X-correlation... INFO @ Thu, 08 Oct 2020 19:43:45: end of X-cor INFO @ Thu, 08 Oct 2020 19:43:45: #2 finished! INFO @ Thu, 08 Oct 2020 19:43:45: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 19:43:45: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 19:43:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05_model.r INFO @ Thu, 08 Oct 2020 19:43:45: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:43:45: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:43:48: 2000000 INFO @ Thu, 08 Oct 2020 19:43:52: 3000000 INFO @ Thu, 08 Oct 2020 19:43:57: 4000000 INFO @ Thu, 08 Oct 2020 19:44:02: 5000000 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 19:44:05: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:44:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.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 19:44:07: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:07: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:07: 6000000 INFO @ Thu, 08 Oct 2020 19:44:12: 1000000 INFO @ Thu, 08 Oct 2020 19:44:12: 7000000 INFO @ Thu, 08 Oct 2020 19:44:13: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:13: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:13: #1 total tags in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:44:13: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:13: #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 19:44:13: #1 tags after filtering in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:44:13: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:13: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:13: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:14: #2 number of paired peaks: 4870 INFO @ Thu, 08 Oct 2020 19:44:14: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:14: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:44:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:44:14: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:14: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:14: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:14: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 19:44:14: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 19:44:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10_model.r INFO @ Thu, 08 Oct 2020 19:44:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.05_summits.bed INFO @ Thu, 08 Oct 2020 19:44:14: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:14: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:44:14: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (7758 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:17: 2000000 INFO @ Thu, 08 Oct 2020 19:44:22: 3000000 INFO @ Thu, 08 Oct 2020 19:44:26: 4000000 INFO @ Thu, 08 Oct 2020 19:44:31: 5000000 INFO @ Thu, 08 Oct 2020 19:44:34: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:44:36: 6000000 INFO @ Thu, 08 Oct 2020 19:44:41: 7000000 INFO @ Thu, 08 Oct 2020 19:44:41: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:41: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:41: #1 total tags in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:44:41: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:41: #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 19:44:41: #1 tags after filtering in treatment: 7050600 INFO @ Thu, 08 Oct 2020 19:44:41: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:41: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:41: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:42: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:44:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:44:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.10_summits.bed INFO @ Thu, 08 Oct 2020 19:44:42: Done! INFO @ Thu, 08 Oct 2020 19:44:42: #2 number of paired peaks: 4870 INFO @ Thu, 08 Oct 2020 19:44:42: start model_add_line... pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (5315 records, 4 fields): 7 millis INFO @ Thu, 08 Oct 2020 19:44:42: start X-correlation... CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:42: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:42: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:42: #2 predicted fragment length is 129 bps INFO @ Thu, 08 Oct 2020 19:44:42: #2 alternative fragment length(s) may be 129 bps INFO @ Thu, 08 Oct 2020 19:44:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20_model.r INFO @ Thu, 08 Oct 2020 19:44:42: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:42: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:45:02: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832073/SRX8832073.20_summits.bed INFO @ Thu, 08 Oct 2020 19:45:10: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (2803 records, 4 fields): 5 millis CompletedMACS2peakCalling