Job ID = 6458269 SRX = SRX5011030 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:19:38 prefetch.2.10.7: 1) Downloading 'SRR8191479'... 2020-06-21T12:19:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:21:10 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:21:10 prefetch.2.10.7: 'SRR8191479' is valid 2020-06-21T12:21:10 prefetch.2.10.7: 1) 'SRR8191479' was downloaded successfully 2020-06-21T12:21:10 prefetch.2.10.7: 'SRR8191479' has 0 unresolved dependencies Read 17524806 spots for SRR8191479/SRR8191479.sra Written 17524806 spots for SRR8191479/SRR8191479.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: 00:04:34 17524806 reads; of these: 17524806 (100.00%) were unpaired; of these: 973324 (5.55%) aligned 0 times 12392883 (70.72%) aligned exactly 1 time 4158599 (23.73%) aligned >1 times 94.45% overall alignment rate Time searching: 00:04:34 Overall time: 00:04:34 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] 6628664 / 16551482 = 0.4005 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 21:29:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.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 21:29:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:29:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:30:02: 1000000 INFO @ Sun, 21 Jun 2020 21:30:08: 2000000 INFO @ Sun, 21 Jun 2020 21:30:14: 3000000 INFO @ Sun, 21 Jun 2020 21:30:20: 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 21:30:26: 5000000 INFO @ Sun, 21 Jun 2020 21:30:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.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 21:30:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:30:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:30:32: 6000000 INFO @ Sun, 21 Jun 2020 21:30:33: 1000000 INFO @ Sun, 21 Jun 2020 21:30:39: 7000000 INFO @ Sun, 21 Jun 2020 21:30:40: 2000000 INFO @ Sun, 21 Jun 2020 21:30:47: 8000000 INFO @ Sun, 21 Jun 2020 21:30:47: 3000000 INFO @ Sun, 21 Jun 2020 21:30:53: 9000000 INFO @ Sun, 21 Jun 2020 21:30:53: 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 21:30:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.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 21:30:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:30:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:31:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:31:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:31:00: #1 total tags in treatment: 9922818 INFO @ Sun, 21 Jun 2020 21:31:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:31:00: #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 21:31:00: #1 tags after filtering in treatment: 9922717 INFO @ Sun, 21 Jun 2020 21:31:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:31:00: #1 finished! INFO @ Sun, 21 Jun 2020 21:31:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:31:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:31:00: 5000000 INFO @ Sun, 21 Jun 2020 21:31:01: #2 number of paired peaks: 2024 INFO @ Sun, 21 Jun 2020 21:31:01: start model_add_line... INFO @ Sun, 21 Jun 2020 21:31:01: start X-correlation... INFO @ Sun, 21 Jun 2020 21:31:01: end of X-cor INFO @ Sun, 21 Jun 2020 21:31:01: #2 finished! INFO @ Sun, 21 Jun 2020 21:31:01: #2 predicted fragment length is 191 bps INFO @ Sun, 21 Jun 2020 21:31:01: #2 alternative fragment length(s) may be 191 bps INFO @ Sun, 21 Jun 2020 21:31:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05_model.r INFO @ Sun, 21 Jun 2020 21:31:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:31:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:31:03: 1000000 INFO @ Sun, 21 Jun 2020 21:31:07: 6000000 INFO @ Sun, 21 Jun 2020 21:31:10: 2000000 INFO @ Sun, 21 Jun 2020 21:31:14: 7000000 INFO @ Sun, 21 Jun 2020 21:31:17: 3000000 INFO @ Sun, 21 Jun 2020 21:31:21: 8000000 INFO @ Sun, 21 Jun 2020 21:31:23: 4000000 INFO @ Sun, 21 Jun 2020 21:31:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:31:27: 9000000 INFO @ Sun, 21 Jun 2020 21:31:30: 5000000 INFO @ Sun, 21 Jun 2020 21:31:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:31:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:31:33: #1 total tags in treatment: 9922818 INFO @ Sun, 21 Jun 2020 21:31:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:31:33: #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 21:31:34: #1 tags after filtering in treatment: 9922717 INFO @ Sun, 21 Jun 2020 21:31:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:31:34: #1 finished! INFO @ Sun, 21 Jun 2020 21:31:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:31:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:31:35: #2 number of paired peaks: 2024 INFO @ Sun, 21 Jun 2020 21:31:35: start model_add_line... INFO @ Sun, 21 Jun 2020 21:31:35: start X-correlation... INFO @ Sun, 21 Jun 2020 21:31:35: end of X-cor INFO @ Sun, 21 Jun 2020 21:31:35: #2 finished! INFO @ Sun, 21 Jun 2020 21:31:35: #2 predicted fragment length is 191 bps INFO @ Sun, 21 Jun 2020 21:31:35: #2 alternative fragment length(s) may be 191 bps INFO @ Sun, 21 Jun 2020 21:31:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10_model.r INFO @ Sun, 21 Jun 2020 21:31:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:31:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:31:36: 6000000 INFO @ Sun, 21 Jun 2020 21:31:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:31:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:31:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.05_summits.bed INFO @ Sun, 21 Jun 2020 21:31:39: Done! pass1 - making usageList (717 chroms): 2 millis pass2 - checking and writing primary data (7628 records, 4 fields): 40 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:31:42: 7000000 INFO @ Sun, 21 Jun 2020 21:31:49: 8000000 INFO @ Sun, 21 Jun 2020 21:31:54: 9000000 INFO @ Sun, 21 Jun 2020 21:32:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:32:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:32:00: #1 total tags in treatment: 9922818 INFO @ Sun, 21 Jun 2020 21:32:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:32:00: #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 21:32:00: #1 tags after filtering in treatment: 9922717 INFO @ Sun, 21 Jun 2020 21:32:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:32:00: #1 finished! INFO @ Sun, 21 Jun 2020 21:32:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:32:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:32:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:32:01: #2 number of paired peaks: 2024 INFO @ Sun, 21 Jun 2020 21:32:01: start model_add_line... INFO @ Sun, 21 Jun 2020 21:32:01: start X-correlation... INFO @ Sun, 21 Jun 2020 21:32:01: end of X-cor INFO @ Sun, 21 Jun 2020 21:32:01: #2 finished! INFO @ Sun, 21 Jun 2020 21:32:01: #2 predicted fragment length is 191 bps INFO @ Sun, 21 Jun 2020 21:32:01: #2 alternative fragment length(s) may be 191 bps INFO @ Sun, 21 Jun 2020 21:32:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20_model.r INFO @ Sun, 21 Jun 2020 21:32:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:32:01: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:32:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:32:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:32:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.10_summits.bed INFO @ Sun, 21 Jun 2020 21:32:12: Done! pass1 - making usageList (563 chroms): 1 millis pass2 - checking and writing primary data (4720 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:32:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:32:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:32:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:32:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011030/SRX5011030.20_summits.bed INFO @ Sun, 21 Jun 2020 21:32:36: Done! pass1 - making usageList (314 chroms): 1 millis pass2 - checking and writing primary data (2312 records, 4 fields): 13 millis CompletedMACS2peakCalling