Job ID = 10165722 SRX = SRX8832081 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 13350384 spots for SRR12332039/SRR12332039.sra Written 13350384 spots for SRR12332039/SRR12332039.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165924 ("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: 00:02:29 13350384 reads; of these: 13350384 (100.00%) were unpaired; of these: 2974909 (22.28%) aligned 0 times 8961302 (67.12%) aligned exactly 1 time 1414173 (10.59%) aligned >1 times 77.72% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:29 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] 6109561 / 10375475 = 0.5888 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 19:45:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.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 19:45:14: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:45:14: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:45:19: 1000000 INFO @ Thu, 08 Oct 2020 19:45:24: 2000000 INFO @ Thu, 08 Oct 2020 19:45:29: 3000000 INFO @ Thu, 08 Oct 2020 19:45:35: 4000000 INFO @ Thu, 08 Oct 2020 19:45:36: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:45:36: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:45:36: #1 total tags in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:45:36: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:45:36: #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 19:45:36: #1 tags after filtering in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:45:36: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:45:36: #1 finished! INFO @ Thu, 08 Oct 2020 19:45:36: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:45:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:45:37: #2 number of paired peaks: 3414 INFO @ Thu, 08 Oct 2020 19:45:37: start model_add_line... INFO @ Thu, 08 Oct 2020 19:45:37: start X-correlation... INFO @ Thu, 08 Oct 2020 19:45:37: end of X-cor INFO @ Thu, 08 Oct 2020 19:45:37: #2 finished! INFO @ Thu, 08 Oct 2020 19:45:37: #2 predicted fragment length is 146 bps INFO @ Thu, 08 Oct 2020 19:45:37: #2 alternative fragment length(s) may be 146 bps INFO @ Thu, 08 Oct 2020 19:45:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05_model.r INFO @ Thu, 08 Oct 2020 19:45:37: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:45:37: #3 Pre-compute pvalue-qvalue table... 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 19:45:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.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 19:45:44: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:45:44: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:45:48: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:50: 1000000 INFO @ Thu, 08 Oct 2020 19:45:54: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.05_summits.bed INFO @ Thu, 08 Oct 2020 19:45:54: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5288 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:45:55: 2000000 INFO @ Thu, 08 Oct 2020 19:46:00: 3000000 INFO @ Thu, 08 Oct 2020 19:46:06: 4000000 INFO @ Thu, 08 Oct 2020 19:46:07: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:46:07: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:46:07: #1 total tags in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:46:07: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:46:07: #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 19:46:07: #1 tags after filtering in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:46:07: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:46:07: #1 finished! INFO @ Thu, 08 Oct 2020 19:46:07: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:46:07: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:46:08: #2 number of paired peaks: 3414 INFO @ Thu, 08 Oct 2020 19:46:08: start model_add_line... INFO @ Thu, 08 Oct 2020 19:46:08: start X-correlation... INFO @ Thu, 08 Oct 2020 19:46:08: end of X-cor INFO @ Thu, 08 Oct 2020 19:46:08: #2 finished! INFO @ Thu, 08 Oct 2020 19:46:08: #2 predicted fragment length is 146 bps INFO @ Thu, 08 Oct 2020 19:46:08: #2 alternative fragment length(s) may be 146 bps INFO @ Thu, 08 Oct 2020 19:46:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10_model.r INFO @ Thu, 08 Oct 2020 19:46:08: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:46:08: #3 Pre-compute pvalue-qvalue table... 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 19:46:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.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 19:46:14: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:46:14: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:46:19: 1000000 INFO @ Thu, 08 Oct 2020 19:46:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:24: 2000000 INFO @ Thu, 08 Oct 2020 19:46:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.10_summits.bed INFO @ Thu, 08 Oct 2020 19:46:24: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4162 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:46:28: 3000000 INFO @ Thu, 08 Oct 2020 19:46:33: 4000000 INFO @ Thu, 08 Oct 2020 19:46:34: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:46:34: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:46:34: #1 total tags in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:46:34: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:46:34: #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 19:46:34: #1 tags after filtering in treatment: 4265914 INFO @ Thu, 08 Oct 2020 19:46:34: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:46:34: #1 finished! INFO @ Thu, 08 Oct 2020 19:46:34: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:46:34: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:46:35: #2 number of paired peaks: 3414 INFO @ Thu, 08 Oct 2020 19:46:35: start model_add_line... INFO @ Thu, 08 Oct 2020 19:46:35: start X-correlation... INFO @ Thu, 08 Oct 2020 19:46:35: end of X-cor INFO @ Thu, 08 Oct 2020 19:46:35: #2 finished! INFO @ Thu, 08 Oct 2020 19:46:35: #2 predicted fragment length is 146 bps INFO @ Thu, 08 Oct 2020 19:46:35: #2 alternative fragment length(s) may be 146 bps INFO @ Thu, 08 Oct 2020 19:46:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20_model.r INFO @ Thu, 08 Oct 2020 19:46:35: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:46:35: #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 19:46:46: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:51: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832081/SRX8832081.20_summits.bed INFO @ Thu, 08 Oct 2020 19:46:51: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3024 records, 4 fields): 4 millis CompletedMACS2peakCalling