Job ID = 6452998 SRX = SRX097615 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:56:00 prefetch.2.10.7: 1) Downloading 'SRR345566'... 2020-06-21T07:56:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:59:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:59:08 prefetch.2.10.7: 1) 'SRR345566' was downloaded successfully Read 34331163 spots for SRR345566/SRR345566.sra Written 34331163 spots for SRR345566/SRR345566.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: 00:07:38 34331163 reads; of these: 34331163 (100.00%) were unpaired; of these: 1361239 (3.97%) aligned 0 times 22534957 (65.64%) aligned exactly 1 time 10434967 (30.40%) aligned >1 times 96.03% overall alignment rate Time searching: 00:07:38 Overall time: 00:07:38 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] 24651021 / 32969924 = 0.7477 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 17:13:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.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 17:13:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:13:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:13:20: 1000000 INFO @ Sun, 21 Jun 2020 17:13:25: 2000000 INFO @ Sun, 21 Jun 2020 17:13:31: 3000000 INFO @ Sun, 21 Jun 2020 17:13:36: 4000000 INFO @ Sun, 21 Jun 2020 17:13:41: 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 17:13:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.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 17:13:45: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:13:45: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:13:46: 6000000 INFO @ Sun, 21 Jun 2020 17:13:50: 1000000 INFO @ Sun, 21 Jun 2020 17:13:52: 7000000 INFO @ Sun, 21 Jun 2020 17:13:56: 2000000 INFO @ Sun, 21 Jun 2020 17:13:57: 8000000 INFO @ Sun, 21 Jun 2020 17:13:59: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:13:59: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:13:59: #1 total tags in treatment: 8318903 INFO @ Sun, 21 Jun 2020 17:13:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:13:59: #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 17:14:00: #1 tags after filtering in treatment: 8318829 INFO @ Sun, 21 Jun 2020 17:14:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:14:00: #1 finished! INFO @ Sun, 21 Jun 2020 17:14:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:14:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:14:00: #2 number of paired peaks: 3940 INFO @ Sun, 21 Jun 2020 17:14:00: start model_add_line... INFO @ Sun, 21 Jun 2020 17:14:01: start X-correlation... INFO @ Sun, 21 Jun 2020 17:14:01: end of X-cor INFO @ Sun, 21 Jun 2020 17:14:01: #2 finished! INFO @ Sun, 21 Jun 2020 17:14:01: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 17:14:01: #2 alternative fragment length(s) may be 121 bps INFO @ Sun, 21 Jun 2020 17:14:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05_model.r INFO @ Sun, 21 Jun 2020 17:14:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:14:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:14:01: 3000000 INFO @ Sun, 21 Jun 2020 17:14:06: 4000000 INFO @ Sun, 21 Jun 2020 17:14:12: 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 17:14:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.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 17:14:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:14:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:17: 6000000 INFO @ Sun, 21 Jun 2020 17:14:20: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:14:20: 1000000 INFO @ Sun, 21 Jun 2020 17:14:23: 7000000 INFO @ Sun, 21 Jun 2020 17:14:26: 2000000 INFO @ Sun, 21 Jun 2020 17:14:28: 8000000 INFO @ Sun, 21 Jun 2020 17:14:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:14:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:14:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.05_summits.bed INFO @ Sun, 21 Jun 2020 17:14:29: Done! pass1 - making usageList (815 chroms): 2 millis pass2 - checking and writing primary data (11163 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:14:30: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:14:30: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:14:30: #1 total tags in treatment: 8318903 INFO @ Sun, 21 Jun 2020 17:14:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:14:30: #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 17:14:31: #1 tags after filtering in treatment: 8318829 INFO @ Sun, 21 Jun 2020 17:14:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:14:31: #1 finished! INFO @ Sun, 21 Jun 2020 17:14:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:14:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:14:31: 3000000 INFO @ Sun, 21 Jun 2020 17:14:31: #2 number of paired peaks: 3940 INFO @ Sun, 21 Jun 2020 17:14:31: start model_add_line... INFO @ Sun, 21 Jun 2020 17:14:31: start X-correlation... INFO @ Sun, 21 Jun 2020 17:14:31: end of X-cor INFO @ Sun, 21 Jun 2020 17:14:31: #2 finished! INFO @ Sun, 21 Jun 2020 17:14:31: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 17:14:31: #2 alternative fragment length(s) may be 121 bps INFO @ Sun, 21 Jun 2020 17:14:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10_model.r INFO @ Sun, 21 Jun 2020 17:14:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:14:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:14:36: 4000000 INFO @ Sun, 21 Jun 2020 17:14:41: 5000000 INFO @ Sun, 21 Jun 2020 17:14:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:14:52: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:14:52: 7000000 INFO @ Sun, 21 Jun 2020 17:14:58: 8000000 INFO @ Sun, 21 Jun 2020 17:15:00: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:15:00: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:15:00: #1 total tags in treatment: 8318903 INFO @ Sun, 21 Jun 2020 17:15:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:15:00: #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 17:15:00: #1 tags after filtering in treatment: 8318829 INFO @ Sun, 21 Jun 2020 17:15:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:15:00: #1 finished! INFO @ Sun, 21 Jun 2020 17:15:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:15:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:15:01: #2 number of paired peaks: 3940 INFO @ Sun, 21 Jun 2020 17:15:01: start model_add_line... INFO @ Sun, 21 Jun 2020 17:15:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:15:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:15:01: start X-correlation... INFO @ Sun, 21 Jun 2020 17:15:01: end of X-cor INFO @ Sun, 21 Jun 2020 17:15:01: #2 finished! INFO @ Sun, 21 Jun 2020 17:15:01: #2 predicted fragment length is 121 bps INFO @ Sun, 21 Jun 2020 17:15:01: #2 alternative fragment length(s) may be 121 bps INFO @ Sun, 21 Jun 2020 17:15:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20_model.r INFO @ Sun, 21 Jun 2020 17:15:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:15:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:15:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.10_summits.bed INFO @ Sun, 21 Jun 2020 17:15:01: Done! pass1 - making usageList (703 chroms): 2 millis pass2 - checking and writing primary data (7911 records, 4 fields): 24 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:15:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:15:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:15:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:15:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097615/SRX097615.20_summits.bed INFO @ Sun, 21 Jun 2020 17:15:31: Done! pass1 - making usageList (536 chroms): 1 millis pass2 - checking and writing primary data (4725 records, 4 fields): 18 millis CompletedMACS2peakCalling