Job ID = 6453805 SRX = SRX149191 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:38:09 prefetch.2.10.7: 1) Downloading 'SRR500151'... 2020-06-21T08:38:09 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:41:49 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:41:49 prefetch.2.10.7: 1) 'SRR500151' was downloaded successfully Read 28275296 spots for SRR500151/SRR500151.sra Written 28275296 spots for SRR500151/SRR500151.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: 00:05:00 28275296 reads; of these: 28275296 (100.00%) were unpaired; of these: 12105282 (42.81%) aligned 0 times 11266461 (39.85%) aligned exactly 1 time 4903553 (17.34%) aligned >1 times 57.19% overall alignment rate Time searching: 00:05:00 Overall time: 00:05:00 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 8 files... [bam_rmdupse_core] 3496035 / 16170014 = 0.2162 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 @ Sun, 21 Jun 2020 17:52:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 17:52:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:52:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:52:09: 1000000 INFO @ Sun, 21 Jun 2020 17:52:16: 2000000 INFO @ Sun, 21 Jun 2020 17:52:23: 3000000 INFO @ Sun, 21 Jun 2020 17:52:29: 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 @ Sun, 21 Jun 2020 17:52:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 17:52:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:52:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:52:36: 5000000 INFO @ Sun, 21 Jun 2020 17:52:40: 1000000 INFO @ Sun, 21 Jun 2020 17:52:44: 6000000 INFO @ Sun, 21 Jun 2020 17:52:48: 2000000 INFO @ Sun, 21 Jun 2020 17:52:52: 7000000 INFO @ Sun, 21 Jun 2020 17:52:55: 3000000 INFO @ Sun, 21 Jun 2020 17:52:59: 8000000 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 @ Sun, 21 Jun 2020 17:53:02: 4000000 INFO @ Sun, 21 Jun 2020 17:53:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Sun, 21 Jun 2020 17:53:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:53:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:53:07: 9000000 INFO @ Sun, 21 Jun 2020 17:53:10: 5000000 INFO @ Sun, 21 Jun 2020 17:53:11: 1000000 INFO @ Sun, 21 Jun 2020 17:53:15: 10000000 INFO @ Sun, 21 Jun 2020 17:53:17: 6000000 INFO @ Sun, 21 Jun 2020 17:53:19: 2000000 INFO @ Sun, 21 Jun 2020 17:53:23: 11000000 INFO @ Sun, 21 Jun 2020 17:53:25: 7000000 INFO @ Sun, 21 Jun 2020 17:53:26: 3000000 INFO @ Sun, 21 Jun 2020 17:53:31: 12000000 INFO @ Sun, 21 Jun 2020 17:53:33: 8000000 INFO @ Sun, 21 Jun 2020 17:53:34: 4000000 INFO @ Sun, 21 Jun 2020 17:53:36: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:53:36: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:53:36: #1 total tags in treatment: 12673979 INFO @ Sun, 21 Jun 2020 17:53:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:53:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:53:37: #1 tags after filtering in treatment: 12673899 INFO @ Sun, 21 Jun 2020 17:53:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:53:37: #1 finished! INFO @ Sun, 21 Jun 2020 17:53:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:53:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:53:38: #2 number of paired peaks: 2167 INFO @ Sun, 21 Jun 2020 17:53:38: start model_add_line... INFO @ Sun, 21 Jun 2020 17:53:38: start X-correlation... INFO @ Sun, 21 Jun 2020 17:53:38: end of X-cor INFO @ Sun, 21 Jun 2020 17:53:38: #2 finished! INFO @ Sun, 21 Jun 2020 17:53:38: #2 predicted fragment length is 112 bps INFO @ Sun, 21 Jun 2020 17:53:38: #2 alternative fragment length(s) may be 112 bps INFO @ Sun, 21 Jun 2020 17:53:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05_model.r INFO @ Sun, 21 Jun 2020 17:53:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:53:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:53:40: 9000000 INFO @ Sun, 21 Jun 2020 17:53:42: 5000000 INFO @ Sun, 21 Jun 2020 17:53:48: 10000000 INFO @ Sun, 21 Jun 2020 17:53:49: 6000000 INFO @ Sun, 21 Jun 2020 17:53:56: 11000000 INFO @ Sun, 21 Jun 2020 17:53:57: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:54:03: 12000000 INFO @ Sun, 21 Jun 2020 17:54:04: 8000000 INFO @ Sun, 21 Jun 2020 17:54:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:54:09: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:54:09: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:54:09: #1 total tags in treatment: 12673979 INFO @ Sun, 21 Jun 2020 17:54:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:54:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:54:09: #1 tags after filtering in treatment: 12673899 INFO @ Sun, 21 Jun 2020 17:54:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:54:09: #1 finished! INFO @ Sun, 21 Jun 2020 17:54:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:54:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:54:10: #2 number of paired peaks: 2167 INFO @ Sun, 21 Jun 2020 17:54:10: start model_add_line... INFO @ Sun, 21 Jun 2020 17:54:10: start X-correlation... INFO @ Sun, 21 Jun 2020 17:54:10: end of X-cor INFO @ Sun, 21 Jun 2020 17:54:10: #2 finished! INFO @ Sun, 21 Jun 2020 17:54:10: #2 predicted fragment length is 112 bps INFO @ Sun, 21 Jun 2020 17:54:10: #2 alternative fragment length(s) may be 112 bps INFO @ Sun, 21 Jun 2020 17:54:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10_model.r INFO @ Sun, 21 Jun 2020 17:54:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:54:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:54:11: 9000000 INFO @ Sun, 21 Jun 2020 17:54:18: 10000000 INFO @ Sun, 21 Jun 2020 17:54:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:54:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:54:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.05_summits.bed INFO @ Sun, 21 Jun 2020 17:54:20: Done! pass1 - making usageList (612 chroms): 2 millis pass2 - checking and writing primary data (8571 records, 4 fields): 26 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:54:25: 11000000 INFO @ Sun, 21 Jun 2020 17:54:32: 12000000 INFO @ Sun, 21 Jun 2020 17:54:37: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:54:37: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:54:37: #1 total tags in treatment: 12673979 INFO @ Sun, 21 Jun 2020 17:54:37: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:54:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 21 Jun 2020 17:54:37: #1 tags after filtering in treatment: 12673899 INFO @ Sun, 21 Jun 2020 17:54:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:54:37: #1 finished! INFO @ Sun, 21 Jun 2020 17:54:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:54:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:54:38: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:54:38: #2 number of paired peaks: 2167 INFO @ Sun, 21 Jun 2020 17:54:38: start model_add_line... INFO @ Sun, 21 Jun 2020 17:54:38: start X-correlation... INFO @ Sun, 21 Jun 2020 17:54:38: end of X-cor INFO @ Sun, 21 Jun 2020 17:54:38: #2 finished! INFO @ Sun, 21 Jun 2020 17:54:38: #2 predicted fragment length is 112 bps INFO @ Sun, 21 Jun 2020 17:54:38: #2 alternative fragment length(s) may be 112 bps INFO @ Sun, 21 Jun 2020 17:54:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20_model.r INFO @ Sun, 21 Jun 2020 17:54:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:54:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:54:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:54:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:54:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.10_summits.bed INFO @ Sun, 21 Jun 2020 17:54:52: Done! pass1 - making usageList (536 chroms): 2 millis pass2 - checking and writing primary data (6235 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:55:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX149191/SRX149191.20_summits.bed INFO @ Sun, 21 Jun 2020 17:55:20: Done! pass1 - making usageList (305 chroms): 1 millis pass2 - checking and writing primary data (3071 records, 4 fields): 13 millis CompletedMACS2peakCalling