Job ID = 10165723 SRX = SRX8832082 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 8896687 spots for SRR12332040/SRR12332040.sra Written 8896687 spots for SRR12332040/SRR12332040.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165908 ("srTce11") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:01:37 8896687 reads; of these: 8896687 (100.00%) were unpaired; of these: 2220243 (24.96%) aligned 0 times 5759319 (64.74%) aligned exactly 1 time 917125 (10.31%) aligned >1 times 75.04% overall alignment rate Time searching: 00:01:38 Overall time: 00:01:38 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] 3719874 / 6676444 = 0.5572 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 19:43:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.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 19:43:30: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:30: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:35: 1000000 INFO @ Thu, 08 Oct 2020 19:43:40: 2000000 INFO @ Thu, 08 Oct 2020 19:43:45: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:43:45: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:43:45: #1 total tags in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:43:45: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:43:45: #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 19:43:45: #1 tags after filtering in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:43:45: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:43:45: #1 finished! INFO @ Thu, 08 Oct 2020 19:43:45: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:43:45: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:43:46: #2 number of paired peaks: 3324 INFO @ Thu, 08 Oct 2020 19:43:46: start model_add_line... INFO @ Thu, 08 Oct 2020 19:43:46: start X-correlation... INFO @ Thu, 08 Oct 2020 19:43:46: end of X-cor INFO @ Thu, 08 Oct 2020 19:43:46: #2 finished! INFO @ Thu, 08 Oct 2020 19:43:46: #2 predicted fragment length is 169 bps INFO @ Thu, 08 Oct 2020 19:43:46: #2 alternative fragment length(s) may be 169 bps INFO @ Thu, 08 Oct 2020 19:43:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05_model.r INFO @ Thu, 08 Oct 2020 19:43:46: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:43:46: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:43:54: #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 19:43:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:43:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:43:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.05_summits.bed INFO @ Thu, 08 Oct 2020 19:43:58: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (4519 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.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 19:44:00: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:00: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:06: 1000000 INFO @ Thu, 08 Oct 2020 19:44:12: 2000000 INFO @ Thu, 08 Oct 2020 19:44:18: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:18: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:18: #1 total tags in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:44:18: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:18: #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 19:44:18: #1 tags after filtering in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:44:18: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:18: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:18: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:18: #2 number of paired peaks: 3324 INFO @ Thu, 08 Oct 2020 19:44:18: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:18: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:18: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:18: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:18: #2 predicted fragment length is 169 bps INFO @ Thu, 08 Oct 2020 19:44:18: #2 alternative fragment length(s) may be 169 bps INFO @ Thu, 08 Oct 2020 19:44:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10_model.r INFO @ Thu, 08 Oct 2020 19:44:18: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:18: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:44:26: #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 19:44:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.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 19:44:30: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:30: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:44:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:44:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.10_summits.bed INFO @ Thu, 08 Oct 2020 19:44:30: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3492 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:44:36: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:44:42: 2000000 BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:44:49: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:49: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:49: #1 total tags in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:44:49: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:49: #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 19:44:49: #1 tags after filtering in treatment: 2956570 INFO @ Thu, 08 Oct 2020 19:44:49: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:49: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:49: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:49: #2 number of paired peaks: 3324 INFO @ Thu, 08 Oct 2020 19:44:49: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:49: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:49: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:49: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:49: #2 predicted fragment length is 169 bps INFO @ Thu, 08 Oct 2020 19:44:49: #2 alternative fragment length(s) may be 169 bps INFO @ Thu, 08 Oct 2020 19:44:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20_model.r INFO @ Thu, 08 Oct 2020 19:44:49: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:49: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:44:58: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:01: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832082/SRX8832082.20_summits.bed INFO @ Thu, 08 Oct 2020 19:45:01: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (2470 records, 4 fields): 4 millis CompletedMACS2peakCalling