Job ID = 6458864 SRX = SRX5717035 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:58:01 prefetch.2.10.7: 1) Downloading 'SRR8936395'... 2020-06-21T12:58:01 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:00:26 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:00:26 prefetch.2.10.7: 1) 'SRR8936395' was downloaded successfully Read 22287048 spots for SRR8936395/SRR8936395.sra Written 22287048 spots for SRR8936395/SRR8936395.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: 00:05:30 22287048 reads; of these: 22287048 (100.00%) were unpaired; of these: 2643240 (11.86%) aligned 0 times 15492162 (69.51%) aligned exactly 1 time 4151646 (18.63%) aligned >1 times 88.14% overall alignment rate Time searching: 00:05:30 Overall time: 00:05:30 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] 7160451 / 19643808 = 0.3645 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 22:11:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.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 22:11:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:11:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:11:17: 1000000 INFO @ Sun, 21 Jun 2020 22:11:23: 2000000 INFO @ Sun, 21 Jun 2020 22:11:29: 3000000 INFO @ Sun, 21 Jun 2020 22:11:34: 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 22:11:40: 5000000 INFO @ Sun, 21 Jun 2020 22:11:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.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 22:11:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:11:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:11:46: 6000000 INFO @ Sun, 21 Jun 2020 22:11:48: 1000000 INFO @ Sun, 21 Jun 2020 22:11:53: 7000000 INFO @ Sun, 21 Jun 2020 22:11:55: 2000000 INFO @ Sun, 21 Jun 2020 22:12:00: 8000000 INFO @ Sun, 21 Jun 2020 22:12:02: 3000000 INFO @ Sun, 21 Jun 2020 22:12:06: 9000000 INFO @ Sun, 21 Jun 2020 22:12:08: 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 @ Sun, 21 Jun 2020 22:12:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.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 22:12:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:12:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:12:13: 10000000 INFO @ Sun, 21 Jun 2020 22:12:15: 5000000 INFO @ Sun, 21 Jun 2020 22:12:19: 1000000 INFO @ Sun, 21 Jun 2020 22:12:20: 11000000 INFO @ Sun, 21 Jun 2020 22:12:22: 6000000 INFO @ Sun, 21 Jun 2020 22:12:25: 2000000 INFO @ Sun, 21 Jun 2020 22:12:26: 12000000 INFO @ Sun, 21 Jun 2020 22:12:28: 7000000 INFO @ Sun, 21 Jun 2020 22:12:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:12:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:12:30: #1 total tags in treatment: 12483357 INFO @ Sun, 21 Jun 2020 22:12:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:12:30: #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 22:12:30: #1 tags after filtering in treatment: 12483242 INFO @ Sun, 21 Jun 2020 22:12:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:12:30: #1 finished! INFO @ Sun, 21 Jun 2020 22:12:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:12:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:12:31: #2 number of paired peaks: 2642 INFO @ Sun, 21 Jun 2020 22:12:31: start model_add_line... INFO @ Sun, 21 Jun 2020 22:12:31: start X-correlation... INFO @ Sun, 21 Jun 2020 22:12:31: end of X-cor INFO @ Sun, 21 Jun 2020 22:12:31: #2 finished! INFO @ Sun, 21 Jun 2020 22:12:31: #2 predicted fragment length is 150 bps INFO @ Sun, 21 Jun 2020 22:12:31: #2 alternative fragment length(s) may be 136,150 bps INFO @ Sun, 21 Jun 2020 22:12:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05_model.r INFO @ Sun, 21 Jun 2020 22:12:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:12:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:12:32: 3000000 INFO @ Sun, 21 Jun 2020 22:12:35: 8000000 INFO @ Sun, 21 Jun 2020 22:12:39: 4000000 INFO @ Sun, 21 Jun 2020 22:12:42: 9000000 INFO @ Sun, 21 Jun 2020 22:12:46: 5000000 INFO @ Sun, 21 Jun 2020 22:12:48: 10000000 INFO @ Sun, 21 Jun 2020 22:12:52: 6000000 INFO @ Sun, 21 Jun 2020 22:12:54: 11000000 INFO @ Sun, 21 Jun 2020 22:12:59: 7000000 INFO @ Sun, 21 Jun 2020 22:13:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:13:01: 12000000 INFO @ Sun, 21 Jun 2020 22:13:04: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:13:04: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:13:04: #1 total tags in treatment: 12483357 INFO @ Sun, 21 Jun 2020 22:13:04: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:13:04: #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 22:13:04: #1 tags after filtering in treatment: 12483242 INFO @ Sun, 21 Jun 2020 22:13:04: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:13:04: #1 finished! INFO @ Sun, 21 Jun 2020 22:13:04: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:13:04: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:13:05: #2 number of paired peaks: 2642 INFO @ Sun, 21 Jun 2020 22:13:05: start model_add_line... INFO @ Sun, 21 Jun 2020 22:13:05: start X-correlation... INFO @ Sun, 21 Jun 2020 22:13:06: end of X-cor INFO @ Sun, 21 Jun 2020 22:13:06: #2 finished! INFO @ Sun, 21 Jun 2020 22:13:06: #2 predicted fragment length is 150 bps INFO @ Sun, 21 Jun 2020 22:13:06: #2 alternative fragment length(s) may be 136,150 bps INFO @ Sun, 21 Jun 2020 22:13:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10_model.r INFO @ Sun, 21 Jun 2020 22:13:06: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:13:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:13:06: 8000000 INFO @ Sun, 21 Jun 2020 22:13:12: 9000000 INFO @ Sun, 21 Jun 2020 22:13:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:13:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:13:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.05_summits.bed INFO @ Sun, 21 Jun 2020 22:13:15: Done! pass1 - making usageList (323 chroms): 1 millis pass2 - checking and writing primary data (2529 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:13:18: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:13:24: 11000000 INFO @ Sun, 21 Jun 2020 22:13:30: 12000000 INFO @ Sun, 21 Jun 2020 22:13:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:13:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:13:33: #1 total tags in treatment: 12483357 INFO @ Sun, 21 Jun 2020 22:13:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:13:33: #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 22:13:33: #1 tags after filtering in treatment: 12483242 INFO @ Sun, 21 Jun 2020 22:13:33: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:13:33: #1 finished! INFO @ Sun, 21 Jun 2020 22:13:33: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:13:33: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:13:34: #2 number of paired peaks: 2642 INFO @ Sun, 21 Jun 2020 22:13:34: start model_add_line... INFO @ Sun, 21 Jun 2020 22:13:34: start X-correlation... INFO @ Sun, 21 Jun 2020 22:13:34: end of X-cor INFO @ Sun, 21 Jun 2020 22:13:34: #2 finished! INFO @ Sun, 21 Jun 2020 22:13:34: #2 predicted fragment length is 150 bps INFO @ Sun, 21 Jun 2020 22:13:34: #2 alternative fragment length(s) may be 136,150 bps INFO @ Sun, 21 Jun 2020 22:13:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20_model.r INFO @ Sun, 21 Jun 2020 22:13:34: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:13:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:13:35: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:13:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:13:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:13:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.10_summits.bed INFO @ Sun, 21 Jun 2020 22:13:49: Done! pass1 - making usageList (157 chroms): 1 millis pass2 - checking and writing primary data (613 records, 4 fields): 6 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:14:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:14:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:14:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:14:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5717035/SRX5717035.20_summits.bed INFO @ Sun, 21 Jun 2020 22:14:15: Done! pass1 - making usageList (90 chroms): 1 millis pass2 - checking and writing primary data (189 records, 4 fields): 3 millis CompletedMACS2peakCalling