Job ID = 6453246 SRX = SRX110765 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:10:05 prefetch.2.10.7: 1) Downloading 'SRR388347'... 2020-06-21T08:10:05 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:15:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:15:09 prefetch.2.10.7: 1) 'SRR388347' was downloaded successfully Read 36933818 spots for SRR388347/SRR388347.sra Written 36933818 spots for SRR388347/SRR388347.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: 00:05:21 36933818 reads; of these: 36933818 (100.00%) were unpaired; of these: 11036641 (29.88%) aligned 0 times 24097366 (65.24%) aligned exactly 1 time 1799811 (4.87%) aligned >1 times 70.12% overall alignment rate Time searching: 00:05:21 Overall time: 00:05:21 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] 8204717 / 25897177 = 0.3168 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 17:27:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.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 17:27:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:27:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:27:35: 1000000 INFO @ Sun, 21 Jun 2020 17:27:39: 2000000 INFO @ Sun, 21 Jun 2020 17:27:44: 3000000 INFO @ Sun, 21 Jun 2020 17:27:49: 4000000 INFO @ Sun, 21 Jun 2020 17:27:54: 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 17:27:58: 6000000 INFO @ Sun, 21 Jun 2020 17:28:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.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 17:28:00: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:28:00: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:28:03: 7000000 INFO @ Sun, 21 Jun 2020 17:28:05: 1000000 INFO @ Sun, 21 Jun 2020 17:28:08: 8000000 INFO @ Sun, 21 Jun 2020 17:28:10: 2000000 INFO @ Sun, 21 Jun 2020 17:28:13: 9000000 INFO @ Sun, 21 Jun 2020 17:28:14: 3000000 INFO @ Sun, 21 Jun 2020 17:28:18: 10000000 INFO @ Sun, 21 Jun 2020 17:28:19: 4000000 INFO @ Sun, 21 Jun 2020 17:28:23: 11000000 INFO @ Sun, 21 Jun 2020 17:28:24: 5000000 INFO @ Sun, 21 Jun 2020 17:28:28: 12000000 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 17:28:29: 6000000 INFO @ Sun, 21 Jun 2020 17:28:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.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 17:28:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:28:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:28:32: 13000000 INFO @ Sun, 21 Jun 2020 17:28:34: 7000000 INFO @ Sun, 21 Jun 2020 17:28:36: 1000000 INFO @ Sun, 21 Jun 2020 17:28:37: 14000000 INFO @ Sun, 21 Jun 2020 17:28:39: 8000000 INFO @ Sun, 21 Jun 2020 17:28:41: 2000000 INFO @ Sun, 21 Jun 2020 17:28:43: 15000000 INFO @ Sun, 21 Jun 2020 17:28:44: 9000000 INFO @ Sun, 21 Jun 2020 17:28:47: 3000000 INFO @ Sun, 21 Jun 2020 17:28:48: 16000000 INFO @ Sun, 21 Jun 2020 17:28:49: 10000000 INFO @ Sun, 21 Jun 2020 17:28:53: 17000000 INFO @ Sun, 21 Jun 2020 17:28:53: 4000000 INFO @ Sun, 21 Jun 2020 17:28:54: 11000000 INFO @ Sun, 21 Jun 2020 17:28:56: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:28:56: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:28:56: #1 total tags in treatment: 17692460 INFO @ Sun, 21 Jun 2020 17:28:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:28:56: #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 17:28:57: #1 tags after filtering in treatment: 17692388 INFO @ Sun, 21 Jun 2020 17:28:57: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:28:57: #1 finished! INFO @ Sun, 21 Jun 2020 17:28:57: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:28:57: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:28:58: #2 number of paired peaks: 3778 INFO @ Sun, 21 Jun 2020 17:28:58: start model_add_line... INFO @ Sun, 21 Jun 2020 17:28:59: start X-correlation... INFO @ Sun, 21 Jun 2020 17:28:59: end of X-cor INFO @ Sun, 21 Jun 2020 17:28:59: #2 finished! INFO @ Sun, 21 Jun 2020 17:28:59: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 17:28:59: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 17:28:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05_model.r INFO @ Sun, 21 Jun 2020 17:28:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:28:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:28:59: 5000000 INFO @ Sun, 21 Jun 2020 17:28:59: 12000000 INFO @ Sun, 21 Jun 2020 17:29:04: 13000000 INFO @ Sun, 21 Jun 2020 17:29:04: 6000000 INFO @ Sun, 21 Jun 2020 17:29:09: 14000000 INFO @ Sun, 21 Jun 2020 17:29:10: 7000000 INFO @ Sun, 21 Jun 2020 17:29:15: 15000000 INFO @ Sun, 21 Jun 2020 17:29:15: 8000000 INFO @ Sun, 21 Jun 2020 17:29:20: 16000000 INFO @ Sun, 21 Jun 2020 17:29:21: 9000000 INFO @ Sun, 21 Jun 2020 17:29:25: 17000000 INFO @ Sun, 21 Jun 2020 17:29:26: 10000000 INFO @ Sun, 21 Jun 2020 17:29:29: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:29:29: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:29:29: #1 total tags in treatment: 17692460 INFO @ Sun, 21 Jun 2020 17:29:29: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:29:29: #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 17:29:29: #1 tags after filtering in treatment: 17692388 INFO @ Sun, 21 Jun 2020 17:29:29: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:29:29: #1 finished! INFO @ Sun, 21 Jun 2020 17:29:29: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:29:29: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:29:31: #2 number of paired peaks: 3778 INFO @ Sun, 21 Jun 2020 17:29:31: start model_add_line... INFO @ Sun, 21 Jun 2020 17:29:31: start X-correlation... INFO @ Sun, 21 Jun 2020 17:29:31: end of X-cor INFO @ Sun, 21 Jun 2020 17:29:31: #2 finished! INFO @ Sun, 21 Jun 2020 17:29:31: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 17:29:31: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 17:29:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10_model.r INFO @ Sun, 21 Jun 2020 17:29:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:29:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:29:32: 11000000 INFO @ Sun, 21 Jun 2020 17:29:37: 12000000 INFO @ Sun, 21 Jun 2020 17:29:38: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:29:43: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:29:48: 14000000 INFO @ Sun, 21 Jun 2020 17:29:54: 15000000 INFO @ Sun, 21 Jun 2020 17:29:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:29:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:29:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.05_summits.bed INFO @ Sun, 21 Jun 2020 17:29:59: Done! pass1 - making usageList (81 chroms): 3 millis pass2 - checking and writing primary data (17685 records, 4 fields): 19 millis INFO @ Sun, 21 Jun 2020 17:29:59: 16000000 CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:30:05: 17000000 INFO @ Sun, 21 Jun 2020 17:30:09: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:30:09: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:30:09: #1 total tags in treatment: 17692460 INFO @ Sun, 21 Jun 2020 17:30:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:30:09: #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 17:30:09: #1 tags after filtering in treatment: 17692388 INFO @ Sun, 21 Jun 2020 17:30:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:30:09: #1 finished! INFO @ Sun, 21 Jun 2020 17:30:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:30:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:30:11: #2 number of paired peaks: 3778 INFO @ Sun, 21 Jun 2020 17:30:11: start model_add_line... INFO @ Sun, 21 Jun 2020 17:30:11: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:30:11: start X-correlation... INFO @ Sun, 21 Jun 2020 17:30:11: end of X-cor INFO @ Sun, 21 Jun 2020 17:30:11: #2 finished! INFO @ Sun, 21 Jun 2020 17:30:11: #2 predicted fragment length is 81 bps INFO @ Sun, 21 Jun 2020 17:30:11: #2 alternative fragment length(s) may be 81 bps INFO @ Sun, 21 Jun 2020 17:30:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20_model.r INFO @ Sun, 21 Jun 2020 17:30:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:30:11: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:30:31: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:30:31: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:30:31: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.10_summits.bed INFO @ Sun, 21 Jun 2020 17:30:31: Done! pass1 - making usageList (56 chroms): 2 millis pass2 - checking and writing primary data (11363 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:30:48: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:31:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:31:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:31:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX110765/SRX110765.20_summits.bed INFO @ Sun, 21 Jun 2020 17:31:08: Done! pass1 - making usageList (30 chroms): 1 millis pass2 - checking and writing primary data (6258 records, 4 fields): 8 millis CompletedMACS2peakCalling