Job ID = 6456119 SRX = SRX318792 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:33:04 prefetch.2.10.7: 1) Downloading 'SRR927108'... 2020-06-21T10:33:04 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:36:19 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:36:19 prefetch.2.10.7: 1) 'SRR927108' was downloaded successfully Read 23427551 spots for SRR927108/SRR927108.sra Written 23427551 spots for SRR927108/SRR927108.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: 00:05:55 23427551 reads; of these: 23427551 (100.00%) were unpaired; of these: 1708788 (7.29%) aligned 0 times 15773771 (67.33%) aligned exactly 1 time 5944992 (25.38%) aligned >1 times 92.71% overall alignment rate Time searching: 00:05:55 Overall time: 00:05:55 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] 7510067 / 21718763 = 0.3458 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 19:48:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.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 19:48:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:48:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:48:27: 1000000 INFO @ Sun, 21 Jun 2020 19:48:32: 2000000 INFO @ Sun, 21 Jun 2020 19:48:38: 3000000 INFO @ Sun, 21 Jun 2020 19:48:43: 4000000 INFO @ Sun, 21 Jun 2020 19:48:48: 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 19:48:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.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 19:48:51: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:48:51: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:48:54: 6000000 INFO @ Sun, 21 Jun 2020 19:48:57: 1000000 INFO @ Sun, 21 Jun 2020 19:49:00: 7000000 INFO @ Sun, 21 Jun 2020 19:49:03: 2000000 INFO @ Sun, 21 Jun 2020 19:49:06: 8000000 INFO @ Sun, 21 Jun 2020 19:49:09: 3000000 INFO @ Sun, 21 Jun 2020 19:49:12: 9000000 INFO @ Sun, 21 Jun 2020 19:49:15: 4000000 INFO @ Sun, 21 Jun 2020 19:49:18: 10000000 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 19:49:21: 5000000 INFO @ Sun, 21 Jun 2020 19:49:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.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 19:49:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:49:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:49:24: 11000000 INFO @ Sun, 21 Jun 2020 19:49:27: 6000000 INFO @ Sun, 21 Jun 2020 19:49:28: 1000000 INFO @ Sun, 21 Jun 2020 19:49:30: 12000000 INFO @ Sun, 21 Jun 2020 19:49:34: 7000000 INFO @ Sun, 21 Jun 2020 19:49:35: 2000000 INFO @ Sun, 21 Jun 2020 19:49:37: 13000000 INFO @ Sun, 21 Jun 2020 19:49:40: 8000000 INFO @ Sun, 21 Jun 2020 19:49:42: 3000000 INFO @ Sun, 21 Jun 2020 19:49:43: 14000000 INFO @ Sun, 21 Jun 2020 19:49:45: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:49:45: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:49:45: #1 total tags in treatment: 14208696 INFO @ Sun, 21 Jun 2020 19:49:45: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:49:45: #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 19:49:45: #1 tags after filtering in treatment: 14208695 INFO @ Sun, 21 Jun 2020 19:49:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:49:45: #1 finished! INFO @ Sun, 21 Jun 2020 19:49:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:49:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:49:46: 9000000 INFO @ Sun, 21 Jun 2020 19:49:46: #2 number of paired peaks: 1099 INFO @ Sun, 21 Jun 2020 19:49:46: start model_add_line... INFO @ Sun, 21 Jun 2020 19:49:47: start X-correlation... INFO @ Sun, 21 Jun 2020 19:49:47: end of X-cor INFO @ Sun, 21 Jun 2020 19:49:47: #2 finished! INFO @ Sun, 21 Jun 2020 19:49:47: #2 predicted fragment length is 183 bps INFO @ Sun, 21 Jun 2020 19:49:47: #2 alternative fragment length(s) may be 183 bps INFO @ Sun, 21 Jun 2020 19:49:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05_model.r INFO @ Sun, 21 Jun 2020 19:49:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:49:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:49:49: 4000000 INFO @ Sun, 21 Jun 2020 19:49:53: 10000000 INFO @ Sun, 21 Jun 2020 19:49:56: 5000000 INFO @ Sun, 21 Jun 2020 19:49:59: 11000000 INFO @ Sun, 21 Jun 2020 19:50:03: 6000000 INFO @ Sun, 21 Jun 2020 19:50:06: 12000000 INFO @ Sun, 21 Jun 2020 19:50:10: 7000000 INFO @ Sun, 21 Jun 2020 19:50:12: 13000000 INFO @ Sun, 21 Jun 2020 19:50:16: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:50:17: 8000000 INFO @ Sun, 21 Jun 2020 19:50:19: 14000000 INFO @ Sun, 21 Jun 2020 19:50:20: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:50:20: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:50:20: #1 total tags in treatment: 14208696 INFO @ Sun, 21 Jun 2020 19:50:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:50:20: #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 19:50:21: #1 tags after filtering in treatment: 14208695 INFO @ Sun, 21 Jun 2020 19:50:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:50:21: #1 finished! INFO @ Sun, 21 Jun 2020 19:50:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:50:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:50:22: #2 number of paired peaks: 1099 INFO @ Sun, 21 Jun 2020 19:50:22: start model_add_line... INFO @ Sun, 21 Jun 2020 19:50:22: start X-correlation... INFO @ Sun, 21 Jun 2020 19:50:22: end of X-cor INFO @ Sun, 21 Jun 2020 19:50:22: #2 finished! INFO @ Sun, 21 Jun 2020 19:50:22: #2 predicted fragment length is 183 bps INFO @ Sun, 21 Jun 2020 19:50:22: #2 alternative fragment length(s) may be 183 bps INFO @ Sun, 21 Jun 2020 19:50:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10_model.r INFO @ Sun, 21 Jun 2020 19:50:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:50:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:50:24: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:50:30: 10000000 INFO @ Sun, 21 Jun 2020 19:50:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:50:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:50:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.05_summits.bed INFO @ Sun, 21 Jun 2020 19:50:31: Done! pass1 - making usageList (653 chroms): 2 millis pass2 - checking and writing primary data (5086 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:50:37: 11000000 INFO @ Sun, 21 Jun 2020 19:50:44: 12000000 INFO @ Sun, 21 Jun 2020 19:50:50: 13000000 INFO @ Sun, 21 Jun 2020 19:50:52: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:50:57: 14000000 INFO @ Sun, 21 Jun 2020 19:50:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:50:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:50:58: #1 total tags in treatment: 14208696 INFO @ Sun, 21 Jun 2020 19:50:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:50:58: #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 19:50:59: #1 tags after filtering in treatment: 14208695 INFO @ Sun, 21 Jun 2020 19:50:59: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:50:59: #1 finished! INFO @ Sun, 21 Jun 2020 19:50:59: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:50:59: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:51:00: #2 number of paired peaks: 1099 INFO @ Sun, 21 Jun 2020 19:51:00: start model_add_line... INFO @ Sun, 21 Jun 2020 19:51:00: start X-correlation... INFO @ Sun, 21 Jun 2020 19:51:00: end of X-cor INFO @ Sun, 21 Jun 2020 19:51:00: #2 finished! INFO @ Sun, 21 Jun 2020 19:51:00: #2 predicted fragment length is 183 bps INFO @ Sun, 21 Jun 2020 19:51:00: #2 alternative fragment length(s) may be 183 bps INFO @ Sun, 21 Jun 2020 19:51:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20_model.r INFO @ Sun, 21 Jun 2020 19:51:00: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:51:00: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:51:07: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:51:07: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:51:07: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.10_summits.bed INFO @ Sun, 21 Jun 2020 19:51:07: Done! pass1 - making usageList (558 chroms): 1 millis pass2 - checking and writing primary data (3713 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:51:30: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:51:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:51:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:51:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX318792/SRX318792.20_summits.bed INFO @ Sun, 21 Jun 2020 19:51:44: Done! pass1 - making usageList (443 chroms): 1 millis pass2 - checking and writing primary data (2572 records, 4 fields): 14 millis CompletedMACS2peakCalling