Job ID = 10166021 SRX = SRX8832099 Genome = ce11 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:29 17513053 reads; of these: 17513053 (100.00%) were unpaired; of these: 932294 (5.32%) aligned 0 times 14438183 (82.44%) aligned exactly 1 time 2142576 (12.23%) aligned >1 times 94.68% overall alignment rate Time searching: 00:03:29 Overall time: 00:03:29 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] 8817270 / 16580759 = 0.5318 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 20:32:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.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 20:32:08: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:32:08: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:14: 1000000 INFO @ Thu, 08 Oct 2020 20:32:19: 2000000 INFO @ Thu, 08 Oct 2020 20:32:25: 3000000 INFO @ Thu, 08 Oct 2020 20:32:30: 4000000 INFO @ Thu, 08 Oct 2020 20:32:36: 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 20:32:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.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 20:32:40: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:32:40: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:32:41: 6000000 INFO @ Thu, 08 Oct 2020 20:32:46: 1000000 INFO @ Thu, 08 Oct 2020 20:32:47: 7000000 INFO @ Thu, 08 Oct 2020 20:32:52: 2000000 INFO @ Thu, 08 Oct 2020 20:32:52: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:32:52: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:32:52: #1 total tags in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:32:52: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:32:52: #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 20:32:52: #1 tags after filtering in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:32:52: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:32:52: #1 finished! INFO @ Thu, 08 Oct 2020 20:32:52: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:32:52: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:32:53: #2 number of paired peaks: 4432 INFO @ Thu, 08 Oct 2020 20:32:53: start model_add_line... INFO @ Thu, 08 Oct 2020 20:32:53: start X-correlation... INFO @ Thu, 08 Oct 2020 20:32:53: end of X-cor INFO @ Thu, 08 Oct 2020 20:32:53: #2 finished! INFO @ Thu, 08 Oct 2020 20:32:53: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 20:32:53: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 20:32:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05_model.r INFO @ Thu, 08 Oct 2020 20:32:53: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:32:53: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:32:57: 3000000 INFO @ Thu, 08 Oct 2020 20:33:03: 4000000 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 20:33:09: 5000000 INFO @ Thu, 08 Oct 2020 20:33:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.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 20:33:10: #1 read tag files... INFO @ Thu, 08 Oct 2020 20:33:10: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 20:33:12: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:33:15: 6000000 INFO @ Thu, 08 Oct 2020 20:33:16: 1000000 INFO @ Thu, 08 Oct 2020 20:33:21: 7000000 INFO @ Thu, 08 Oct 2020 20:33:21: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05_peaks.xls INFO @ Thu, 08 Oct 2020 20:33:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:33:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.05_summits.bed INFO @ Thu, 08 Oct 2020 20:33:21: Done! INFO @ Thu, 08 Oct 2020 20:33:22: 2000000 pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7671 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:33:25: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:33:25: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:33:25: #1 total tags in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:33:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:33:25: #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 20:33:25: #1 tags after filtering in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:33:25: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:33:25: #1 finished! INFO @ Thu, 08 Oct 2020 20:33:25: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:33:25: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 20:33:26: #2 number of paired peaks: 4432 INFO @ Thu, 08 Oct 2020 20:33:26: start model_add_line... INFO @ Thu, 08 Oct 2020 20:33:26: start X-correlation... INFO @ Thu, 08 Oct 2020 20:33:26: end of X-cor INFO @ Thu, 08 Oct 2020 20:33:26: #2 finished! INFO @ Thu, 08 Oct 2020 20:33:26: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 20:33:26: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 20:33:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10_model.r INFO @ Thu, 08 Oct 2020 20:33:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:33:26: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 20:33:27: 3000000 INFO @ Thu, 08 Oct 2020 20:33:33: 4000000 INFO @ Thu, 08 Oct 2020 20:33:39: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 20:33:45: 6000000 INFO @ Thu, 08 Oct 2020 20:33:46: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:33:50: 7000000 INFO @ Thu, 08 Oct 2020 20:33:55: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 20:33:55: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 20:33:55: #1 total tags in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:33:55: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 20:33:55: #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 20:33:55: #1 tags after filtering in treatment: 7763489 INFO @ Thu, 08 Oct 2020 20:33:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 20:33:55: #1 finished! INFO @ Thu, 08 Oct 2020 20:33:55: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 20:33:55: #2 looking for paired plus/minus strand peaks... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 20:33:55: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10_peaks.xls INFO @ Thu, 08 Oct 2020 20:33:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:33:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.10_summits.bed INFO @ Thu, 08 Oct 2020 20:33:56: Done! INFO @ Thu, 08 Oct 2020 20:33:56: #2 number of paired peaks: 4432 INFO @ Thu, 08 Oct 2020 20:33:56: start model_add_line... INFO @ Thu, 08 Oct 2020 20:33:56: start X-correlation... INFO @ Thu, 08 Oct 2020 20:33:56: end of X-cor INFO @ Thu, 08 Oct 2020 20:33:56: #2 finished! INFO @ Thu, 08 Oct 2020 20:33:56: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 20:33:56: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 20:33:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20_model.r INFO @ Thu, 08 Oct 2020 20:33:56: #3 Call peaks... INFO @ Thu, 08 Oct 2020 20:33:56: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6294 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 20:34:15: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 20:34:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20_peaks.xls INFO @ Thu, 08 Oct 2020 20:34:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 20:34:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce11/SRX8832099/SRX8832099.20_summits.bed INFO @ Thu, 08 Oct 2020 20:34:24: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4881 records, 4 fields): 7 millis CompletedMACS2peakCalling