Job ID = 6453239 SRX = SRX110761 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:12:33 prefetch.2.10.7: 1) Downloading 'SRR388343'... 2020-06-21T08:12:33 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:19:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:19:51 prefetch.2.10.7: 1) 'SRR388343' was downloaded successfully Read 31457054 spots for SRR388343/SRR388343.sra Written 31457054 spots for SRR388343/SRR388343.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: 00:04:06 31457054 reads; of these: 31457054 (100.00%) were unpaired; of these: 15103285 (48.01%) aligned 0 times 14695647 (46.72%) aligned exactly 1 time 1658122 (5.27%) aligned >1 times 51.99% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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] 4535491 / 16353769 = 0.2773 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 17:29:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.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 17:29:10: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:29:10: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:29:15: 1000000 INFO @ Sun, 21 Jun 2020 17:29:20: 2000000 INFO @ Sun, 21 Jun 2020 17:29:25: 3000000 INFO @ Sun, 21 Jun 2020 17:29:30: 4000000 INFO @ Sun, 21 Jun 2020 17:29:35: 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 17:29:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.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 17:29:40: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:29:40: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:29:40: 6000000 INFO @ Sun, 21 Jun 2020 17:29:45: 1000000 INFO @ Sun, 21 Jun 2020 17:29:45: 7000000 INFO @ Sun, 21 Jun 2020 17:29:50: 2000000 INFO @ Sun, 21 Jun 2020 17:29:50: 8000000 INFO @ Sun, 21 Jun 2020 17:29:55: 3000000 INFO @ Sun, 21 Jun 2020 17:29:55: 9000000 INFO @ Sun, 21 Jun 2020 17:30:00: 4000000 INFO @ Sun, 21 Jun 2020 17:30:01: 10000000 INFO @ Sun, 21 Jun 2020 17:30:05: 5000000 INFO @ Sun, 21 Jun 2020 17:30:06: 11000000 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 17:30:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.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 17:30:10: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:30:10: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:30:10: 6000000 INFO @ Sun, 21 Jun 2020 17:30:11: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:30:11: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:30:11: #1 total tags in treatment: 11818278 INFO @ Sun, 21 Jun 2020 17:30:11: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:30:11: #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 17:30:11: #1 tags after filtering in treatment: 11818183 INFO @ Sun, 21 Jun 2020 17:30:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:30:11: #1 finished! INFO @ Sun, 21 Jun 2020 17:30:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:30:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:30:12: #2 number of paired peaks: 5010 INFO @ Sun, 21 Jun 2020 17:30:12: start model_add_line... INFO @ Sun, 21 Jun 2020 17:30:13: start X-correlation... INFO @ Sun, 21 Jun 2020 17:30:13: end of X-cor INFO @ Sun, 21 Jun 2020 17:30:13: #2 finished! INFO @ Sun, 21 Jun 2020 17:30:13: #2 predicted fragment length is 83 bps INFO @ Sun, 21 Jun 2020 17:30:13: #2 alternative fragment length(s) may be 83 bps INFO @ Sun, 21 Jun 2020 17:30:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05_model.r INFO @ Sun, 21 Jun 2020 17:30:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:30:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:30:15: 1000000 INFO @ Sun, 21 Jun 2020 17:30:16: 7000000 INFO @ Sun, 21 Jun 2020 17:30:21: 8000000 INFO @ Sun, 21 Jun 2020 17:30:21: 2000000 INFO @ Sun, 21 Jun 2020 17:30:26: 9000000 INFO @ Sun, 21 Jun 2020 17:30:27: 3000000 INFO @ Sun, 21 Jun 2020 17:30:32: 10000000 INFO @ Sun, 21 Jun 2020 17:30:32: 4000000 INFO @ Sun, 21 Jun 2020 17:30:37: 11000000 INFO @ Sun, 21 Jun 2020 17:30:38: 5000000 INFO @ Sun, 21 Jun 2020 17:30:42: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:30:42: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:30:42: #1 total tags in treatment: 11818278 INFO @ Sun, 21 Jun 2020 17:30:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:30:42: #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 17:30:42: #1 tags after filtering in treatment: 11818183 INFO @ Sun, 21 Jun 2020 17:30:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:30:42: #1 finished! INFO @ Sun, 21 Jun 2020 17:30:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:30:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:30:43: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:30:43: 6000000 INFO @ Sun, 21 Jun 2020 17:30:43: #2 number of paired peaks: 5010 INFO @ Sun, 21 Jun 2020 17:30:43: start model_add_line... INFO @ Sun, 21 Jun 2020 17:30:43: start X-correlation... INFO @ Sun, 21 Jun 2020 17:30:43: end of X-cor INFO @ Sun, 21 Jun 2020 17:30:43: #2 finished! INFO @ Sun, 21 Jun 2020 17:30:43: #2 predicted fragment length is 83 bps INFO @ Sun, 21 Jun 2020 17:30:43: #2 alternative fragment length(s) may be 83 bps INFO @ Sun, 21 Jun 2020 17:30:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10_model.r INFO @ Sun, 21 Jun 2020 17:30:43: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:30:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:30:49: 7000000 INFO @ Sun, 21 Jun 2020 17:30:54: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:30:59: 9000000 INFO @ Sun, 21 Jun 2020 17:30:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:31:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:31:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.05_summits.bed INFO @ Sun, 21 Jun 2020 17:31:00: Done! pass1 - making usageList (94 chroms): 2 millis pass2 - checking and writing primary data (12651 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:31:05: 10000000 INFO @ Sun, 21 Jun 2020 17:31:10: 11000000 INFO @ Sun, 21 Jun 2020 17:31:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:31:14: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:31:14: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:31:14: #1 total tags in treatment: 11818278 INFO @ Sun, 21 Jun 2020 17:31:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:31:14: #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 17:31:15: #1 tags after filtering in treatment: 11818183 INFO @ Sun, 21 Jun 2020 17:31:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:31:15: #1 finished! INFO @ Sun, 21 Jun 2020 17:31:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:31:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:31:16: #2 number of paired peaks: 5010 INFO @ Sun, 21 Jun 2020 17:31:16: start model_add_line... INFO @ Sun, 21 Jun 2020 17:31:16: start X-correlation... INFO @ Sun, 21 Jun 2020 17:31:16: end of X-cor INFO @ Sun, 21 Jun 2020 17:31:16: #2 finished! INFO @ Sun, 21 Jun 2020 17:31:16: #2 predicted fragment length is 83 bps INFO @ Sun, 21 Jun 2020 17:31:16: #2 alternative fragment length(s) may be 83 bps INFO @ Sun, 21 Jun 2020 17:31:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20_model.r INFO @ Sun, 21 Jun 2020 17:31:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:31:16: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:31:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:31:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:31:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.10_summits.bed INFO @ Sun, 21 Jun 2020 17:31:28: Done! pass1 - making usageList (62 chroms): 1 millis pass2 - checking and writing primary data (7863 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:31:47: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:32:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:32:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:32:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110761/SRX110761.20_summits.bed INFO @ Sun, 21 Jun 2020 17:32:05: Done! pass1 - making usageList (30 chroms): 4 millis pass2 - checking and writing primary data (4486 records, 4 fields): 7 millis CompletedMACS2peakCalling