Job ID = 10165742 SRX = SRX8832094 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... Read 15511694 spots for SRR12332052/SRR12332052.sra Written 15511694 spots for SRR12332052/SRR12332052.sra fastq に変換しました。 bowtie でマッピング中... Your job 10165980 ("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: 00:02:54 15511694 reads; of these: 15511694 (100.00%) were unpaired; of these: 4057507 (26.16%) aligned 0 times 9519753 (61.37%) aligned exactly 1 time 1934434 (12.47%) aligned >1 times 73.84% overall alignment rate Time searching: 00:02:54 Overall time: 00:02:54 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] 2583309 / 11454187 = 0.2255 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 19:51:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.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 19:51:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:51:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:51:08: 1000000 INFO @ Thu, 08 Oct 2020 19:51:14: 2000000 INFO @ Thu, 08 Oct 2020 19:51:19: 3000000 INFO @ Thu, 08 Oct 2020 19:51:25: 4000000 INFO @ Thu, 08 Oct 2020 19:51:30: 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 19:51:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.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 19:51:33: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:51:33: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:51:36: 6000000 INFO @ Thu, 08 Oct 2020 19:51:39: 1000000 INFO @ Thu, 08 Oct 2020 19:51:42: 7000000 INFO @ Thu, 08 Oct 2020 19:51:45: 2000000 INFO @ Thu, 08 Oct 2020 19:51:48: 8000000 INFO @ Thu, 08 Oct 2020 19:51:51: 3000000 INFO @ Thu, 08 Oct 2020 19:51:53: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:51:53: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:51:53: #1 total tags in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:51:53: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:51:53: #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 19:51:53: #1 tags after filtering in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:51:53: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:51:53: #1 finished! INFO @ Thu, 08 Oct 2020 19:51:53: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:51:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:51:54: #2 number of paired peaks: 1145 INFO @ Thu, 08 Oct 2020 19:51:54: start model_add_line... INFO @ Thu, 08 Oct 2020 19:51:54: start X-correlation... INFO @ Thu, 08 Oct 2020 19:51:54: end of X-cor INFO @ Thu, 08 Oct 2020 19:51:54: #2 finished! INFO @ Thu, 08 Oct 2020 19:51:54: #2 predicted fragment length is 145 bps INFO @ Thu, 08 Oct 2020 19:51:54: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 08 Oct 2020 19:51:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05_model.r INFO @ Thu, 08 Oct 2020 19:51:54: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:51:54: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:51:57: 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 19:52:03: 5000000 INFO @ Thu, 08 Oct 2020 19:52:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.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 19:52:03: #1 read tag files... INFO @ Thu, 08 Oct 2020 19:52:03: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 19:52:08: 6000000 INFO @ Thu, 08 Oct 2020 19:52:09: 1000000 INFO @ Thu, 08 Oct 2020 19:52:14: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:52:14: 7000000 INFO @ Thu, 08 Oct 2020 19:52:15: 2000000 INFO @ Thu, 08 Oct 2020 19:52:20: 8000000 INFO @ Thu, 08 Oct 2020 19:52:21: 3000000 INFO @ Thu, 08 Oct 2020 19:52:24: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.05_summits.bed INFO @ Thu, 08 Oct 2020 19:52:25: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (5089 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 19:52:25: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:52:25: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:52:25: #1 total tags in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:52:25: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:52:25: #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 19:52:26: #1 tags after filtering in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:52:26: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:52:26: #1 finished! INFO @ Thu, 08 Oct 2020 19:52:26: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:52:26: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:52:26: #2 number of paired peaks: 1145 INFO @ Thu, 08 Oct 2020 19:52:26: start model_add_line... INFO @ Thu, 08 Oct 2020 19:52:26: start X-correlation... INFO @ Thu, 08 Oct 2020 19:52:26: end of X-cor INFO @ Thu, 08 Oct 2020 19:52:26: #2 finished! INFO @ Thu, 08 Oct 2020 19:52:26: #2 predicted fragment length is 145 bps INFO @ Thu, 08 Oct 2020 19:52:26: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 08 Oct 2020 19:52:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10_model.r INFO @ Thu, 08 Oct 2020 19:52:26: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:52:26: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:52:27: 4000000 INFO @ Thu, 08 Oct 2020 19:52:32: 5000000 INFO @ Thu, 08 Oct 2020 19:52:38: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 08 Oct 2020 19:52:43: 7000000 INFO @ Thu, 08 Oct 2020 19:52:47: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:52:49: 8000000 INFO @ Thu, 08 Oct 2020 19:52:54: #1 tag size is determined as 50 bps INFO @ Thu, 08 Oct 2020 19:52:54: #1 tag size = 50 INFO @ Thu, 08 Oct 2020 19:52:54: #1 total tags in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:52:54: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 19:52:54: #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 19:52:54: #1 tags after filtering in treatment: 8870878 INFO @ Thu, 08 Oct 2020 19:52:54: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 19:52:54: #1 finished! INFO @ Thu, 08 Oct 2020 19:52:54: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 19:52:54: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 19:52:54: #2 number of paired peaks: 1145 INFO @ Thu, 08 Oct 2020 19:52:54: start model_add_line... INFO @ Thu, 08 Oct 2020 19:52:54: start X-correlation... INFO @ Thu, 08 Oct 2020 19:52:54: end of X-cor INFO @ Thu, 08 Oct 2020 19:52:54: #2 finished! INFO @ Thu, 08 Oct 2020 19:52:54: #2 predicted fragment length is 145 bps INFO @ Thu, 08 Oct 2020 19:52:54: #2 alternative fragment length(s) may be 145 bps INFO @ Thu, 08 Oct 2020 19:52:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20_model.r INFO @ Thu, 08 Oct 2020 19:52:54: #3 Call peaks... INFO @ Thu, 08 Oct 2020 19:52:54: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 19:52:58: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10_peaks.xls INFO @ Thu, 08 Oct 2020 19:52:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:52:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.10_summits.bed INFO @ Thu, 08 Oct 2020 19:52:58: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (3884 records, 4 fields): 5 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 19:53:15: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 19:53:25: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20_peaks.xls INFO @ Thu, 08 Oct 2020 19:53:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 19:53:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX8832094/SRX8832094.20_summits.bed INFO @ Thu, 08 Oct 2020 19:53:25: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (2587 records, 4 fields): 4 millis CompletedMACS2peakCalling