Job ID = 6459469 SRX = SRX681828 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:18:48 prefetch.2.10.7: 1) Downloading 'SRR1552297'... 2020-06-21T13:18:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:24:31 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:24:31 prefetch.2.10.7: 1) 'SRR1552297' was downloaded successfully Read 30529482 spots for SRR1552297/SRR1552297.sra Written 30529482 spots for SRR1552297/SRR1552297.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: 00:06:54 30529482 reads; of these: 30529482 (100.00%) were unpaired; of these: 5885843 (19.28%) aligned 0 times 22375623 (73.29%) aligned exactly 1 time 2268016 (7.43%) aligned >1 times 80.72% overall alignment rate Time searching: 00:06:54 Overall time: 00:06:54 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 1870 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 7964738 / 24643639 = 0.3232 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 22:39:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.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 22:39:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:39:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:39:10: 1000000 INFO @ Sun, 21 Jun 2020 22:39:15: 2000000 INFO @ Sun, 21 Jun 2020 22:39:20: 3000000 INFO @ Sun, 21 Jun 2020 22:39:24: 4000000 INFO @ Sun, 21 Jun 2020 22:39:29: 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 @ Sun, 21 Jun 2020 22:39:34: 6000000 INFO @ Sun, 21 Jun 2020 22:39:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.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 22:39:35: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:39:35: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:39:39: 7000000 INFO @ Sun, 21 Jun 2020 22:39:40: 1000000 INFO @ Sun, 21 Jun 2020 22:39:44: 8000000 INFO @ Sun, 21 Jun 2020 22:39:45: 2000000 INFO @ Sun, 21 Jun 2020 22:39:49: 9000000 INFO @ Sun, 21 Jun 2020 22:39:50: 3000000 INFO @ Sun, 21 Jun 2020 22:39:54: 10000000 INFO @ Sun, 21 Jun 2020 22:39:55: 4000000 INFO @ Sun, 21 Jun 2020 22:39:59: 11000000 INFO @ Sun, 21 Jun 2020 22:40:00: 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 @ Sun, 21 Jun 2020 22:40:04: 12000000 INFO @ Sun, 21 Jun 2020 22:40:05: 6000000 INFO @ Sun, 21 Jun 2020 22:40:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.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 22:40:05: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:40:05: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:40:09: 13000000 INFO @ Sun, 21 Jun 2020 22:40:10: 7000000 INFO @ Sun, 21 Jun 2020 22:40:10: 1000000 INFO @ Sun, 21 Jun 2020 22:40:14: 14000000 INFO @ Sun, 21 Jun 2020 22:40:15: 8000000 INFO @ Sun, 21 Jun 2020 22:40:15: 2000000 INFO @ Sun, 21 Jun 2020 22:40:19: 15000000 INFO @ Sun, 21 Jun 2020 22:40:20: 9000000 INFO @ Sun, 21 Jun 2020 22:40:20: 3000000 INFO @ Sun, 21 Jun 2020 22:40:24: 16000000 INFO @ Sun, 21 Jun 2020 22:40:25: 10000000 INFO @ Sun, 21 Jun 2020 22:40:25: 4000000 INFO @ Sun, 21 Jun 2020 22:40:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:40:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:40:28: #1 total tags in treatment: 16678901 INFO @ Sun, 21 Jun 2020 22:40:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:40:28: #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 22:40:29: #1 tags after filtering in treatment: 16678858 INFO @ Sun, 21 Jun 2020 22:40:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:40:29: #1 finished! INFO @ Sun, 21 Jun 2020 22:40:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:40:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:40:30: 11000000 INFO @ Sun, 21 Jun 2020 22:40:30: 5000000 INFO @ Sun, 21 Jun 2020 22:40:30: #2 number of paired peaks: 1908 INFO @ Sun, 21 Jun 2020 22:40:30: start model_add_line... INFO @ Sun, 21 Jun 2020 22:40:30: start X-correlation... INFO @ Sun, 21 Jun 2020 22:40:30: end of X-cor INFO @ Sun, 21 Jun 2020 22:40:30: #2 finished! INFO @ Sun, 21 Jun 2020 22:40:30: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 22:40:30: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 22:40:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05_model.r INFO @ Sun, 21 Jun 2020 22:40:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:40:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:40:35: 6000000 INFO @ Sun, 21 Jun 2020 22:40:35: 12000000 INFO @ Sun, 21 Jun 2020 22:40:40: 7000000 INFO @ Sun, 21 Jun 2020 22:40:40: 13000000 INFO @ Sun, 21 Jun 2020 22:40:44: 8000000 INFO @ Sun, 21 Jun 2020 22:40:45: 14000000 INFO @ Sun, 21 Jun 2020 22:40:49: 9000000 INFO @ Sun, 21 Jun 2020 22:40:50: 15000000 INFO @ Sun, 21 Jun 2020 22:40:54: 10000000 INFO @ Sun, 21 Jun 2020 22:40:55: 16000000 INFO @ Sun, 21 Jun 2020 22:40:59: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:40:59: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:40:59: #1 total tags in treatment: 16678901 INFO @ Sun, 21 Jun 2020 22:40:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:40:59: #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 22:40:59: #1 tags after filtering in treatment: 16678858 INFO @ Sun, 21 Jun 2020 22:40:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:40:59: #1 finished! INFO @ Sun, 21 Jun 2020 22:40:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:40:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:40:59: 11000000 INFO @ Sun, 21 Jun 2020 22:41:00: #2 number of paired peaks: 1908 INFO @ Sun, 21 Jun 2020 22:41:00: start model_add_line... INFO @ Sun, 21 Jun 2020 22:41:01: start X-correlation... INFO @ Sun, 21 Jun 2020 22:41:01: end of X-cor INFO @ Sun, 21 Jun 2020 22:41:01: #2 finished! INFO @ Sun, 21 Jun 2020 22:41:01: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 22:41:01: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 22:41:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10_model.r INFO @ Sun, 21 Jun 2020 22:41:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:41:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:41:04: 12000000 INFO @ Sun, 21 Jun 2020 22:41:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:41:09: 13000000 INFO @ Sun, 21 Jun 2020 22:41:14: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:41:19: 15000000 INFO @ Sun, 21 Jun 2020 22:41:24: 16000000 INFO @ Sun, 21 Jun 2020 22:41:28: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:41:28: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:41:28: #1 total tags in treatment: 16678901 INFO @ Sun, 21 Jun 2020 22:41:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:41:28: #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 22:41:28: #1 tags after filtering in treatment: 16678858 INFO @ Sun, 21 Jun 2020 22:41:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:41:28: #1 finished! INFO @ Sun, 21 Jun 2020 22:41:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:41:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:41:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:41:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:41:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.05_summits.bed INFO @ Sun, 21 Jun 2020 22:41:29: Done! pass1 - making usageList (434 chroms): 2 millis pass2 - checking and writing primary data (12444 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:41:29: #2 number of paired peaks: 1908 INFO @ Sun, 21 Jun 2020 22:41:29: start model_add_line... INFO @ Sun, 21 Jun 2020 22:41:30: start X-correlation... INFO @ Sun, 21 Jun 2020 22:41:30: end of X-cor INFO @ Sun, 21 Jun 2020 22:41:30: #2 finished! INFO @ Sun, 21 Jun 2020 22:41:30: #2 predicted fragment length is 206 bps INFO @ Sun, 21 Jun 2020 22:41:30: #2 alternative fragment length(s) may be 206 bps INFO @ Sun, 21 Jun 2020 22:41:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20_model.r INFO @ Sun, 21 Jun 2020 22:41:30: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:41:30: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:41:41: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:42:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:42:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:42:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.10_summits.bed INFO @ Sun, 21 Jun 2020 22:42:02: Done! pass1 - making usageList (376 chroms): 2 millis pass2 - checking and writing primary data (8343 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:42:10: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:42:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:42:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:42:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681828/SRX681828.20_summits.bed INFO @ Sun, 21 Jun 2020 22:42:29: Done! pass1 - making usageList (275 chroms): 2 millis pass2 - checking and writing primary data (5110 records, 4 fields): 12 millis CompletedMACS2peakCalling