Job ID = 6497530 SRX = SRX495120 Genome = ce10 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-25T22:26:12 prefetch.2.10.7: 1) Downloading 'SRR1198652'... 2020-06-25T22:26:12 prefetch.2.10.7: Downloading via HTTPS... 2020-06-25T22:30:06 prefetch.2.10.7: HTTPS download succeed 2020-06-25T22:30:06 prefetch.2.10.7: 1) 'SRR1198652' was downloaded successfully Read 19824579 spots for SRR1198652/SRR1198652.sra Written 19824579 spots for SRR1198652/SRR1198652.sra 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: 00:03:40 19824579 reads; of these: 19824579 (100.00%) were unpaired; of these: 638141 (3.22%) aligned 0 times 16349555 (82.47%) aligned exactly 1 time 2836883 (14.31%) aligned >1 times 96.78% overall alignment rate Time searching: 00:03:40 Overall time: 00:03:40 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] 12434123 / 19186438 = 0.6481 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 @ Fri, 26 Jun 2020 07:38:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.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 @ Fri, 26 Jun 2020 07:38:23: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:38:23: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:38:29: 1000000 INFO @ Fri, 26 Jun 2020 07:38:36: 2000000 INFO @ Fri, 26 Jun 2020 07:38:42: 3000000 INFO @ Fri, 26 Jun 2020 07:38:48: 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 @ Fri, 26 Jun 2020 07:38:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.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 @ Fri, 26 Jun 2020 07:38:53: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:38:53: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:38:54: 5000000 INFO @ Fri, 26 Jun 2020 07:39:00: 1000000 INFO @ Fri, 26 Jun 2020 07:39:00: 6000000 INFO @ Fri, 26 Jun 2020 07:39:05: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:39:05: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:39:05: #1 total tags in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:39:05: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:39:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:39:05: #1 tags after filtering in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:39:05: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:39:05: #1 finished! INFO @ Fri, 26 Jun 2020 07:39:05: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:39:05: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:39:05: #2 number of paired peaks: 2045 INFO @ Fri, 26 Jun 2020 07:39:05: start model_add_line... INFO @ Fri, 26 Jun 2020 07:39:06: start X-correlation... INFO @ Fri, 26 Jun 2020 07:39:06: end of X-cor INFO @ Fri, 26 Jun 2020 07:39:06: #2 finished! INFO @ Fri, 26 Jun 2020 07:39:06: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 07:39:06: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 07:39:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05_model.r INFO @ Fri, 26 Jun 2020 07:39:06: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:39:06: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:39:07: 2000000 INFO @ Fri, 26 Jun 2020 07:39:13: 3000000 INFO @ Fri, 26 Jun 2020 07:39:19: 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 @ Fri, 26 Jun 2020 07:39:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.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 @ Fri, 26 Jun 2020 07:39:23: #1 read tag files... INFO @ Fri, 26 Jun 2020 07:39:23: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 07:39:26: 5000000 INFO @ Fri, 26 Jun 2020 07:39:26: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:39:29: 1000000 INFO @ Fri, 26 Jun 2020 07:39:32: 6000000 INFO @ Fri, 26 Jun 2020 07:39:35: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05_peaks.xls INFO @ Fri, 26 Jun 2020 07:39:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:39:35: 2000000 INFO @ Fri, 26 Jun 2020 07:39:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.05_summits.bed INFO @ Fri, 26 Jun 2020 07:39:35: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (4062 records, 4 fields): 5 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 07:39:37: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:39:37: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:39:37: #1 total tags in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:39:37: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:39:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:39:37: #1 tags after filtering in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:39:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:39:37: #1 finished! INFO @ Fri, 26 Jun 2020 07:39:37: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:39:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:39:37: #2 number of paired peaks: 2045 INFO @ Fri, 26 Jun 2020 07:39:37: start model_add_line... INFO @ Fri, 26 Jun 2020 07:39:37: start X-correlation... INFO @ Fri, 26 Jun 2020 07:39:37: end of X-cor INFO @ Fri, 26 Jun 2020 07:39:37: #2 finished! INFO @ Fri, 26 Jun 2020 07:39:37: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 07:39:37: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 07:39:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10_model.r INFO @ Fri, 26 Jun 2020 07:39:37: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:39:37: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:39:41: 3000000 INFO @ Fri, 26 Jun 2020 07:39:47: 4000000 INFO @ Fri, 26 Jun 2020 07:39:53: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 07:39:57: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:39:58: 6000000 INFO @ Fri, 26 Jun 2020 07:40:02: #1 tag size is determined as 42 bps INFO @ Fri, 26 Jun 2020 07:40:02: #1 tag size = 42 INFO @ Fri, 26 Jun 2020 07:40:02: #1 total tags in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:40:02: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 07:40:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 07:40:02: #1 tags after filtering in treatment: 6752315 INFO @ Fri, 26 Jun 2020 07:40:02: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 07:40:02: #1 finished! INFO @ Fri, 26 Jun 2020 07:40:02: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 07:40:02: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 07:40:03: #2 number of paired peaks: 2045 INFO @ Fri, 26 Jun 2020 07:40:03: start model_add_line... INFO @ Fri, 26 Jun 2020 07:40:03: start X-correlation... INFO @ Fri, 26 Jun 2020 07:40:03: end of X-cor INFO @ Fri, 26 Jun 2020 07:40:03: #2 finished! INFO @ Fri, 26 Jun 2020 07:40:03: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 07:40:03: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 07:40:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20_model.r INFO @ Fri, 26 Jun 2020 07:40:03: #3 Call peaks... INFO @ Fri, 26 Jun 2020 07:40:03: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 07:40:06: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10_peaks.xls INFO @ Fri, 26 Jun 2020 07:40:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:40:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.10_summits.bed INFO @ Fri, 26 Jun 2020 07:40:06: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (2051 records, 4 fields): 3 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 07:40:21: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 07:40:30: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20_peaks.xls INFO @ Fri, 26 Jun 2020 07:40:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 07:40:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX495120/SRX495120.20_summits.bed INFO @ Fri, 26 Jun 2020 07:40:30: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (753 records, 4 fields): 2 millis CompletedMACS2peakCalling