Job ID = 10165740 SRX = SRX8832093 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 22250857 spots for SRR12332051/SRR12332051.sra Written 22250857 spots for SRR12332051/SRR12332051.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165996 ("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: 00:03:47 22250857 reads; of these: 22250857 (100.00%) were unpaired; of these: 6839106 (30.74%) aligned 0 times 13190145 (59.28%) aligned exactly 1 time 2221606 (9.98%) aligned >1 times 69.26% overall alignment rate Time searching: 00:03:47 Overall time: 00:03:47 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] 5663690 / 15411751 = 0.3675 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 19:52:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.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 19:52:42: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:52:42: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:52:47: 1000000 INFO @ Thu, 08 Oct 2020 19:52:52: 2000000 INFO @ Thu, 08 Oct 2020 19:52:57: 3000000 INFO @ Thu, 08 Oct 2020 19:53:02: 4000000 INFO @ Thu, 08 Oct 2020 19:53:07: 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 19:53:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.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 19:53:11: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:53:11: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:53:12: 6000000 INFO @ Thu, 08 Oct 2020 19:53:16: 1000000 INFO @ Thu, 08 Oct 2020 19:53:17: 7000000 INFO @ Thu, 08 Oct 2020 19:53:22: 2000000 INFO @ Thu, 08 Oct 2020 19:53:23: 8000000 INFO @ Thu, 08 Oct 2020 19:53:27: 3000000 INFO @ Thu, 08 Oct 2020 19:53:28: 9000000 INFO @ Thu, 08 Oct 2020 19:53:32: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:53:32: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:53:32: #1 total tags in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:53:32: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:53:32: #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 19:53:32: #1 tags after filtering in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:53:32: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:53:32: #1 finished! INFO @ Thu, 08 Oct 2020 19:53:32: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:53:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:53:32: 4000000 INFO @ Thu, 08 Oct 2020 19:53:33: #2 number of paired peaks: 2121 INFO @ Thu, 08 Oct 2020 19:53:33: start model_add_line... INFO @ Thu, 08 Oct 2020 19:53:33: start X-correlation... INFO @ Thu, 08 Oct 2020 19:53:33: end of X-cor INFO @ Thu, 08 Oct 2020 19:53:33: #2 finished! INFO @ Thu, 08 Oct 2020 19:53:33: #2 predicted fragment length is 143 bps INFO @ Thu, 08 Oct 2020 19:53:33: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 08 Oct 2020 19:53:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05_model.r INFO @ Thu, 08 Oct 2020 19:53:33: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:53:33: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:53:38: 5000000 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 19:53:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.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 19:53:43: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:53:43: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:53:43: 6000000 INFO @ Thu, 08 Oct 2020 19:53:48: 1000000 INFO @ Thu, 08 Oct 2020 19:53:48: 7000000 INFO @ Thu, 08 Oct 2020 19:53:54: 2000000 INFO @ Thu, 08 Oct 2020 19:53:54: 8000000 INFO @ Thu, 08 Oct 2020 19:53:55: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:53:59: 9000000 INFO @ Thu, 08 Oct 2020 19:53:59: 3000000 INFO @ Thu, 08 Oct 2020 19:54:03: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:54:03: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:54:03: #1 total tags in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:54:03: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:03: #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 19:54:03: #1 tags after filtering in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:54:03: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:03: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:03: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:03: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:04: #2 number of paired peaks: 2121 INFO @ Thu, 08 Oct 2020 19:54:04: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:04: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:04: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:04: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:04: #2 predicted fragment length is 143 bps INFO @ Thu, 08 Oct 2020 19:54:04: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 08 Oct 2020 19:54:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10_model.r INFO @ Thu, 08 Oct 2020 19:54:04: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:04: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:04: 4000000 INFO @ Thu, 08 Oct 2020 19:54:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.05_summits.bed INFO @ Thu, 08 Oct 2020 19:54:06: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (6694 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:54:10: 5000000 INFO @ Thu, 08 Oct 2020 19:54:15: 6000000 INFO @ Thu, 08 Oct 2020 19:54:20: 7000000 INFO @ Thu, 08 Oct 2020 19:54:25: 8000000 INFO @ Thu, 08 Oct 2020 19:54:26: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:54:31: 9000000 INFO @ Thu, 08 Oct 2020 19:54:34: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:54:34: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:54:34: #1 total tags in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:54:34: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:54:34: #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 19:54:35: #1 tags after filtering in treatment: 9748061 INFO @ Thu, 08 Oct 2020 19:54:35: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:54:35: #1 finished! INFO @ Thu, 08 Oct 2020 19:54:35: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:54:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:54:35: #2 number of paired peaks: 2121 INFO @ Thu, 08 Oct 2020 19:54:35: start model_add_line... INFO @ Thu, 08 Oct 2020 19:54:35: start X-correlation... INFO @ Thu, 08 Oct 2020 19:54:35: end of X-cor INFO @ Thu, 08 Oct 2020 19:54:35: #2 finished! INFO @ Thu, 08 Oct 2020 19:54:35: #2 predicted fragment length is 143 bps INFO @ Thu, 08 Oct 2020 19:54:35: #2 alternative fragment length(s) may be 143 bps INFO @ Thu, 08 Oct 2020 19:54:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20_model.r INFO @ Thu, 08 Oct 2020 19:54:35: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:54:35: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:54:36: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:54:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:54:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.10_summits.bed INFO @ Thu, 08 Oct 2020 19:54:36: Done! pass1 - making usageList (7 chroms): 2 millis pass2 - checking and writing primary data (5460 records, 4 fields): 6 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:54:58: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:55:09: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:55:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:55:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832093/SRX8832093.20_summits.bed INFO @ Thu, 08 Oct 2020 19:55:09: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4138 records, 4 fields): 6 millis CompletedMACS2peakCalling