Job ID = 6456120 SRX = SRX318793 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:25:05 prefetch.2.10.7: 1) Downloading 'SRR927109'... 2020-06-21T10:25:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:28:46 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:28:46 prefetch.2.10.7: 1) 'SRR927109' was downloaded successfully Read 21115118 spots for SRR927109/SRR927109.sra Written 21115118 spots for SRR927109/SRR927109.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: 00:05:13 21115118 reads; of these: 21115118 (100.00%) were unpaired; of these: 1673148 (7.92%) aligned 0 times 14831451 (70.24%) aligned exactly 1 time 4610519 (21.84%) aligned >1 times 92.08% overall alignment rate Time searching: 00:05:13 Overall time: 00:05:13 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] 4044392 / 19441970 = 0.2080 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 19:39:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.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 19:39:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:39:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:39:52: 1000000 INFO @ Sun, 21 Jun 2020 19:39:59: 2000000 INFO @ Sun, 21 Jun 2020 19:40:06: 3000000 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 19:40:13: 4000000 INFO @ Sun, 21 Jun 2020 19:40:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.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 19:40:14: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:40:14: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:40:21: 5000000 INFO @ Sun, 21 Jun 2020 19:40:22: 1000000 INFO @ Sun, 21 Jun 2020 19:40:29: 2000000 INFO @ Sun, 21 Jun 2020 19:40:29: 6000000 INFO @ Sun, 21 Jun 2020 19:40:36: 3000000 INFO @ Sun, 21 Jun 2020 19:40:38: 7000000 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 19:40:44: 4000000 INFO @ Sun, 21 Jun 2020 19:40:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.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 19:40:44: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:40:44: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:40:46: 8000000 INFO @ Sun, 21 Jun 2020 19:40:51: 5000000 INFO @ Sun, 21 Jun 2020 19:40:52: 1000000 INFO @ Sun, 21 Jun 2020 19:40:54: 9000000 INFO @ Sun, 21 Jun 2020 19:40:59: 6000000 INFO @ Sun, 21 Jun 2020 19:40:59: 2000000 INFO @ Sun, 21 Jun 2020 19:41:03: 10000000 INFO @ Sun, 21 Jun 2020 19:41:06: 7000000 INFO @ Sun, 21 Jun 2020 19:41:07: 3000000 INFO @ Sun, 21 Jun 2020 19:41:11: 11000000 INFO @ Sun, 21 Jun 2020 19:41:14: 8000000 INFO @ Sun, 21 Jun 2020 19:41:14: 4000000 INFO @ Sun, 21 Jun 2020 19:41:19: 12000000 INFO @ Sun, 21 Jun 2020 19:41:21: 9000000 INFO @ Sun, 21 Jun 2020 19:41:22: 5000000 INFO @ Sun, 21 Jun 2020 19:41:27: 13000000 INFO @ Sun, 21 Jun 2020 19:41:29: 10000000 INFO @ Sun, 21 Jun 2020 19:41:29: 6000000 INFO @ Sun, 21 Jun 2020 19:41:35: 14000000 INFO @ Sun, 21 Jun 2020 19:41:36: 11000000 INFO @ Sun, 21 Jun 2020 19:41:36: 7000000 INFO @ Sun, 21 Jun 2020 19:41:44: 15000000 INFO @ Sun, 21 Jun 2020 19:41:44: 12000000 INFO @ Sun, 21 Jun 2020 19:41:44: 8000000 INFO @ Sun, 21 Jun 2020 19:41:47: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:41:47: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:41:47: #1 total tags in treatment: 15397578 INFO @ Sun, 21 Jun 2020 19:41:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:41:47: #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 19:41:47: #1 tags after filtering in treatment: 15397576 INFO @ Sun, 21 Jun 2020 19:41:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:41:47: #1 finished! INFO @ Sun, 21 Jun 2020 19:41:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:41:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:41:49: #2 number of paired peaks: 2013 INFO @ Sun, 21 Jun 2020 19:41:49: start model_add_line... INFO @ Sun, 21 Jun 2020 19:41:49: start X-correlation... INFO @ Sun, 21 Jun 2020 19:41:49: end of X-cor INFO @ Sun, 21 Jun 2020 19:41:49: #2 finished! INFO @ Sun, 21 Jun 2020 19:41:49: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:41:49: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:41:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05_model.r INFO @ Sun, 21 Jun 2020 19:41:49: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:41:49: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:41:51: 9000000 INFO @ Sun, 21 Jun 2020 19:41:51: 13000000 INFO @ Sun, 21 Jun 2020 19:41:58: 10000000 INFO @ Sun, 21 Jun 2020 19:41:58: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:42:05: 11000000 INFO @ Sun, 21 Jun 2020 19:42:06: 15000000 INFO @ Sun, 21 Jun 2020 19:42:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:42:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:42:09: #1 total tags in treatment: 15397578 INFO @ Sun, 21 Jun 2020 19:42:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:42:09: #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 19:42:09: #1 tags after filtering in treatment: 15397576 INFO @ Sun, 21 Jun 2020 19:42:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:42:09: #1 finished! INFO @ Sun, 21 Jun 2020 19:42:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:42:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:42:10: #2 number of paired peaks: 2013 INFO @ Sun, 21 Jun 2020 19:42:10: start model_add_line... INFO @ Sun, 21 Jun 2020 19:42:10: start X-correlation... INFO @ Sun, 21 Jun 2020 19:42:10: end of X-cor INFO @ Sun, 21 Jun 2020 19:42:10: #2 finished! INFO @ Sun, 21 Jun 2020 19:42:10: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:42:10: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:42:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10_model.r INFO @ Sun, 21 Jun 2020 19:42:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:42:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:42:11: 12000000 INFO @ Sun, 21 Jun 2020 19:42:18: 13000000 INFO @ Sun, 21 Jun 2020 19:42:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:42:24: 14000000 INFO @ Sun, 21 Jun 2020 19:42:30: 15000000 INFO @ Sun, 21 Jun 2020 19:42:33: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:42:33: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:42:33: #1 total tags in treatment: 15397578 INFO @ Sun, 21 Jun 2020 19:42:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:42:33: #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 19:42:34: #1 tags after filtering in treatment: 15397576 INFO @ Sun, 21 Jun 2020 19:42:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:42:34: #1 finished! INFO @ Sun, 21 Jun 2020 19:42:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:42:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:42:35: #2 number of paired peaks: 2013 INFO @ Sun, 21 Jun 2020 19:42:35: start model_add_line... INFO @ Sun, 21 Jun 2020 19:42:35: start X-correlation... INFO @ Sun, 21 Jun 2020 19:42:35: end of X-cor INFO @ Sun, 21 Jun 2020 19:42:35: #2 finished! INFO @ Sun, 21 Jun 2020 19:42:35: #2 predicted fragment length is 205 bps INFO @ Sun, 21 Jun 2020 19:42:35: #2 alternative fragment length(s) may be 205 bps INFO @ Sun, 21 Jun 2020 19:42:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20_model.r INFO @ Sun, 21 Jun 2020 19:42:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:42:35: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:42:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:42:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:42:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.05_summits.bed INFO @ Sun, 21 Jun 2020 19:42:40: Done! pass1 - making usageList (587 chroms): 2 millis pass2 - checking and writing primary data (7482 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:42:45: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:43:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:43:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:43:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.10_summits.bed INFO @ Sun, 21 Jun 2020 19:43:03: Done! pass1 - making usageList (501 chroms): 1 millis pass2 - checking and writing primary data (5778 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:43:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:43:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:43:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:43:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318793/SRX318793.20_summits.bed INFO @ Sun, 21 Jun 2020 19:43:26: Done! pass1 - making usageList (414 chroms): 1 millis pass2 - checking and writing primary data (4171 records, 4 fields): 26 millis CompletedMACS2peakCalling