Job ID = 10165698 SRX = SRX8832068 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15364166 spots for SRR12332010/SRR12332010.sra Written 15364166 spots for SRR12332010/SRR12332010.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165855 ("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: 00:03:16 15364166 reads; of these: 15364166 (100.00%) were unpaired; of these: 750777 (4.89%) aligned 0 times 12721102 (82.80%) aligned exactly 1 time 1892287 (12.32%) aligned >1 times 95.11% overall alignment rate Time searching: 00:03:16 Overall time: 00:03:16 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] 2119213 / 14613389 = 0.1450 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 19:43:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.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 19:43:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:43:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:43:40: 1000000 INFO @ Thu, 08 Oct 2020 19:43:46: 2000000 INFO @ Thu, 08 Oct 2020 19:43:52: 3000000 INFO @ Thu, 08 Oct 2020 19:43:59: 4000000 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 19:44:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.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 19:44:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:05: 5000000 INFO @ Thu, 08 Oct 2020 19:44:10: 1000000 INFO @ Thu, 08 Oct 2020 19:44:12: 6000000 INFO @ Thu, 08 Oct 2020 19:44:16: 2000000 INFO @ Thu, 08 Oct 2020 19:44:18: 7000000 INFO @ Thu, 08 Oct 2020 19:44:23: 3000000 INFO @ Thu, 08 Oct 2020 19:44:25: 8000000 INFO @ Thu, 08 Oct 2020 19:44:29: 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 19:44:31: 9000000 INFO @ Thu, 08 Oct 2020 19:44:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.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 19:44:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:44:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:44:36: 5000000 INFO @ Thu, 08 Oct 2020 19:44:39: 10000000 INFO @ Thu, 08 Oct 2020 19:44:40: 1000000 INFO @ Thu, 08 Oct 2020 19:44:43: 6000000 INFO @ Thu, 08 Oct 2020 19:44:46: 11000000 INFO @ Thu, 08 Oct 2020 19:44:47: 2000000 INFO @ Thu, 08 Oct 2020 19:44:50: 7000000 INFO @ Thu, 08 Oct 2020 19:44:53: 12000000 INFO @ Thu, 08 Oct 2020 19:44:54: 3000000 INFO @ Thu, 08 Oct 2020 19:44:56: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:44:56: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:44:56: #1 total tags in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:44:56: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:44:56: #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 19:44:56: 8000000 INFO @ Thu, 08 Oct 2020 19:44:56: #1 tags after filtering in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:44:56: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:44:56: #1 finished! INFO @ Thu, 08 Oct 2020 19:44:56: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:44:56: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:44:57: #2 number of paired peaks: 3276 INFO @ Thu, 08 Oct 2020 19:44:57: start model_add_line... INFO @ Thu, 08 Oct 2020 19:44:58: start X-correlation... INFO @ Thu, 08 Oct 2020 19:44:58: end of X-cor INFO @ Thu, 08 Oct 2020 19:44:58: #2 finished! INFO @ Thu, 08 Oct 2020 19:44:58: #2 predicted fragment length is 154 bps INFO @ Thu, 08 Oct 2020 19:44:58: #2 alternative fragment length(s) may be 4,154 bps INFO @ Thu, 08 Oct 2020 19:44:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05_model.r INFO @ Thu, 08 Oct 2020 19:44:58: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:44:58: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:44:59: 4000000 INFO @ Thu, 08 Oct 2020 19:45:02: 9000000 INFO @ Thu, 08 Oct 2020 19:45:05: 5000000 INFO @ Thu, 08 Oct 2020 19:45:08: 10000000 INFO @ Thu, 08 Oct 2020 19:45:11: 6000000 INFO @ Thu, 08 Oct 2020 19:45:14: 11000000 INFO @ Thu, 08 Oct 2020 19:45:17: 7000000 INFO @ Thu, 08 Oct 2020 19:45:20: 12000000 INFO @ Thu, 08 Oct 2020 19:45:23: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:45:23: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:45:23: #1 total tags in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:45:23: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:45:23: #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 19:45:23: 8000000 INFO @ Thu, 08 Oct 2020 19:45:23: #1 tags after filtering in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:45:23: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:45:23: #1 finished! INFO @ Thu, 08 Oct 2020 19:45:23: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:45:23: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:45:24: #2 number of paired peaks: 3276 INFO @ Thu, 08 Oct 2020 19:45:24: start model_add_line... INFO @ Thu, 08 Oct 2020 19:45:24: start X-correlation... INFO @ Thu, 08 Oct 2020 19:45:24: end of X-cor INFO @ Thu, 08 Oct 2020 19:45:24: #2 finished! INFO @ Thu, 08 Oct 2020 19:45:24: #2 predicted fragment length is 154 bps INFO @ Thu, 08 Oct 2020 19:45:24: #2 alternative fragment length(s) may be 4,154 bps INFO @ Thu, 08 Oct 2020 19:45:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10_model.r INFO @ Thu, 08 Oct 2020 19:45:24: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:45:24: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:45:28: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:45:28: 9000000 INFO @ Thu, 08 Oct 2020 19:45:34: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:45:39: 11000000 INFO @ Thu, 08 Oct 2020 19:45:43: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:45:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:45:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.05_summits.bed INFO @ Thu, 08 Oct 2020 19:45:43: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (7725 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:45:45: 12000000 INFO @ Thu, 08 Oct 2020 19:45:47: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:45:47: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:45:47: #1 total tags in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:45:47: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:45:47: #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 19:45:48: #1 tags after filtering in treatment: 12494176 INFO @ Thu, 08 Oct 2020 19:45:48: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:45:48: #1 finished! INFO @ Thu, 08 Oct 2020 19:45:48: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:45:48: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:45:49: #2 number of paired peaks: 3276 INFO @ Thu, 08 Oct 2020 19:45:49: start model_add_line... INFO @ Thu, 08 Oct 2020 19:45:49: start X-correlation... INFO @ Thu, 08 Oct 2020 19:45:49: end of X-cor INFO @ Thu, 08 Oct 2020 19:45:49: #2 finished! INFO @ Thu, 08 Oct 2020 19:45:49: #2 predicted fragment length is 154 bps INFO @ Thu, 08 Oct 2020 19:45:49: #2 alternative fragment length(s) may be 4,154 bps INFO @ Thu, 08 Oct 2020 19:45:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20_model.r INFO @ Thu, 08 Oct 2020 19:45:49: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:45:49: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:45:54: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:46:07: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.10_summits.bed INFO @ Thu, 08 Oct 2020 19:46:08: Done! pass1 - making usageList (6 chroms): 2 millis pass2 - checking and writing primary data (6224 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:46:18: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:46:32: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:46:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:46:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832068/SRX8832068.20_summits.bed INFO @ Thu, 08 Oct 2020 19:46:32: Done! pass1 - making usageList (6 chroms): 1 millis pass2 - checking and writing primary data (4347 records, 4 fields): 7 millis CompletedMACS2peakCalling