Job ID = 10165748 SRX = SRX8832099 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 17513053 spots for SRR12332023/SRR12332023.sra Written 17513053 spots for SRR12332023/SRR12332023.sra fastq に変換しました。 bowtie でマッピング中... Your job 10166021 ("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: 00:03:52 17513053 reads; of these: 17513053 (100.00%) were unpaired; of these: 932557 (5.32%) aligned 0 times 14438000 (82.44%) aligned exactly 1 time 2142496 (12.23%) aligned >1 times 94.68% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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] 8817177 / 16580496 = 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 19:55:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 19:55:56: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:55:56: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:04: 1000000 INFO @ Thu, 08 Oct 2020 19:56:11: 2000000 INFO @ Thu, 08 Oct 2020 19:56:19: 3000000 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 19:56:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 19:56:25: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:25: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:26: 4000000 INFO @ Thu, 08 Oct 2020 19:56:33: 1000000 INFO @ Thu, 08 Oct 2020 19:56:34: 5000000 INFO @ Thu, 08 Oct 2020 19:56:41: 2000000 INFO @ Thu, 08 Oct 2020 19:56:41: 6000000 INFO @ Thu, 08 Oct 2020 19:56:48: 3000000 INFO @ Thu, 08 Oct 2020 19:56:49: 7000000 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 19:56:55: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:56:55: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:56:55: #1 total tags in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:56:55: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:56:55: #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 19:56:55: #1 tags after filtering in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:56:55: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:56:55: #1 finished! INFO @ Thu, 08 Oct 2020 19:56:55: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:56:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:56:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/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 19:56:55: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:56:55: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:56:56: #2 number of paired peaks: 4433 INFO @ Thu, 08 Oct 2020 19:56:56: start model_add_line... INFO @ Thu, 08 Oct 2020 19:56:56: 4000000 INFO @ Thu, 08 Oct 2020 19:56:56: start X-correlation... INFO @ Thu, 08 Oct 2020 19:56:56: end of X-cor INFO @ Thu, 08 Oct 2020 19:56:56: #2 finished! INFO @ Thu, 08 Oct 2020 19:56:56: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 19:56:56: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 19:56:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05_model.r INFO @ Thu, 08 Oct 2020 19:56:56: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:56:56: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:03: 1000000 INFO @ Thu, 08 Oct 2020 19:57:03: 5000000 INFO @ Thu, 08 Oct 2020 19:57:11: 6000000 INFO @ Thu, 08 Oct 2020 19:57:11: 2000000 INFO @ Thu, 08 Oct 2020 19:57:17: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:57:18: 7000000 INFO @ Thu, 08 Oct 2020 19:57:18: 3000000 INFO @ Thu, 08 Oct 2020 19:57:23: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:57:23: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:57:23: #1 total tags in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:57:23: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:23: #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 19:57:24: #1 tags after filtering in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:57:24: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:24: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:24: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:24: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:57:25: #2 number of paired peaks: 4433 INFO @ Thu, 08 Oct 2020 19:57:25: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:25: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:25: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:25: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:25: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 19:57:25: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 19:57:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10_model.r INFO @ Thu, 08 Oct 2020 19:57:25: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:25: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:26: 4000000 INFO @ Thu, 08 Oct 2020 19:57:27: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:27: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:27: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.05_summits.bed INFO @ Thu, 08 Oct 2020 19:57:27: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (7671 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:57:33: 5000000 INFO @ Thu, 08 Oct 2020 19:57:40: 6000000 INFO @ Thu, 08 Oct 2020 19:57:45: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:57:47: 7000000 INFO @ Thu, 08 Oct 2020 19:57:53: #1 tag size is determined as 49 bps INFO @ Thu, 08 Oct 2020 19:57:53: #1 tag size = 49 INFO @ Thu, 08 Oct 2020 19:57:53: #1 total tags in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:57:53: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:57:53: #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 19:57:53: #1 tags after filtering in treatment: 7763319 INFO @ Thu, 08 Oct 2020 19:57:53: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:57:53: #1 finished! INFO @ Thu, 08 Oct 2020 19:57:53: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:57:53: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:57:54: #2 number of paired peaks: 4433 INFO @ Thu, 08 Oct 2020 19:57:54: start model_add_line... INFO @ Thu, 08 Oct 2020 19:57:54: start X-correlation... INFO @ Thu, 08 Oct 2020 19:57:54: end of X-cor INFO @ Thu, 08 Oct 2020 19:57:54: #2 finished! INFO @ Thu, 08 Oct 2020 19:57:54: #2 predicted fragment length is 152 bps INFO @ Thu, 08 Oct 2020 19:57:54: #2 alternative fragment length(s) may be 152 bps INFO @ Thu, 08 Oct 2020 19:57:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20_model.r INFO @ Thu, 08 Oct 2020 19:57:54: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:57:54: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:57:55: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:57:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:57:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.10_summits.bed INFO @ Thu, 08 Oct 2020 19:57:55: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (6293 records, 4 fields): 9 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:58:15: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:58:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:58:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:58:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832099/SRX8832099.20_summits.bed INFO @ Thu, 08 Oct 2020 19:58:24: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (4881 records, 4 fields): 8 millis CompletedMACS2peakCalling