Job ID = 6454873 SRX = SRX2592465 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:31:14 prefetch.2.10.7: 1) Downloading 'SRR5289742'... 2020-06-21T09:31:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:36:16 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:36:16 prefetch.2.10.7: 1) 'SRR5289742' was downloaded successfully Read 20273408 spots for SRR5289742/SRR5289742.sra Written 20273408 spots for SRR5289742/SRR5289742.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: 00:04:31 20273408 reads; of these: 20273408 (100.00%) were unpaired; of these: 3544932 (17.49%) aligned 0 times 13556315 (66.87%) aligned exactly 1 time 3172161 (15.65%) aligned >1 times 82.51% overall alignment rate Time searching: 00:04:31 Overall time: 00:04:31 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] 5276257 / 16728476 = 0.3154 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 18:47:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.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 18:47:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:47:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:47:24: 1000000 INFO @ Sun, 21 Jun 2020 18:47:30: 2000000 INFO @ Sun, 21 Jun 2020 18:47:37: 3000000 INFO @ Sun, 21 Jun 2020 18:47:43: 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 18:47:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.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 18:47:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:47:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:47:49: 5000000 INFO @ Sun, 21 Jun 2020 18:47:55: 1000000 INFO @ Sun, 21 Jun 2020 18:47:56: 6000000 INFO @ Sun, 21 Jun 2020 18:48:03: 7000000 INFO @ Sun, 21 Jun 2020 18:48:04: 2000000 INFO @ Sun, 21 Jun 2020 18:48:09: 8000000 INFO @ Sun, 21 Jun 2020 18:48:12: 3000000 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 18:48:16: 9000000 INFO @ Sun, 21 Jun 2020 18:48:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.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 18:48:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:48:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:48:21: 4000000 INFO @ Sun, 21 Jun 2020 18:48:23: 10000000 INFO @ Sun, 21 Jun 2020 18:48:25: 1000000 INFO @ Sun, 21 Jun 2020 18:48:29: 5000000 INFO @ Sun, 21 Jun 2020 18:48:30: 11000000 INFO @ Sun, 21 Jun 2020 18:48:32: 2000000 INFO @ Sun, 21 Jun 2020 18:48:33: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:48:33: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:48:33: #1 total tags in treatment: 11452219 INFO @ Sun, 21 Jun 2020 18:48:33: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:48:33: #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 18:48:34: #1 tags after filtering in treatment: 11452015 INFO @ Sun, 21 Jun 2020 18:48:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:48:34: #1 finished! INFO @ Sun, 21 Jun 2020 18:48:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:48:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:48:36: #2 number of paired peaks: 8292 INFO @ Sun, 21 Jun 2020 18:48:36: start model_add_line... INFO @ Sun, 21 Jun 2020 18:48:36: start X-correlation... INFO @ Sun, 21 Jun 2020 18:48:36: end of X-cor INFO @ Sun, 21 Jun 2020 18:48:36: #2 finished! INFO @ Sun, 21 Jun 2020 18:48:36: #2 predicted fragment length is 184 bps INFO @ Sun, 21 Jun 2020 18:48:36: #2 alternative fragment length(s) may be 184 bps INFO @ Sun, 21 Jun 2020 18:48:36: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05_model.r INFO @ Sun, 21 Jun 2020 18:48:36: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:48:36: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:48:37: 6000000 INFO @ Sun, 21 Jun 2020 18:48:40: 3000000 INFO @ Sun, 21 Jun 2020 18:48:45: 7000000 INFO @ Sun, 21 Jun 2020 18:48:47: 4000000 INFO @ Sun, 21 Jun 2020 18:48:53: 8000000 INFO @ Sun, 21 Jun 2020 18:48:54: 5000000 INFO @ Sun, 21 Jun 2020 18:49:01: 9000000 INFO @ Sun, 21 Jun 2020 18:49:01: 6000000 INFO @ Sun, 21 Jun 2020 18:49:09: 7000000 INFO @ Sun, 21 Jun 2020 18:49:10: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:49:16: 8000000 INFO @ Sun, 21 Jun 2020 18:49:16: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:49:18: 11000000 INFO @ Sun, 21 Jun 2020 18:49:22: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:49:22: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:49:22: #1 total tags in treatment: 11452219 INFO @ Sun, 21 Jun 2020 18:49:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:49:22: #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 18:49:22: #1 tags after filtering in treatment: 11452015 INFO @ Sun, 21 Jun 2020 18:49:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:49:22: #1 finished! INFO @ Sun, 21 Jun 2020 18:49:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:49:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:49:23: 9000000 INFO @ Sun, 21 Jun 2020 18:49:24: #2 number of paired peaks: 8292 INFO @ Sun, 21 Jun 2020 18:49:24: start model_add_line... INFO @ Sun, 21 Jun 2020 18:49:24: start X-correlation... INFO @ Sun, 21 Jun 2020 18:49:24: end of X-cor INFO @ Sun, 21 Jun 2020 18:49:24: #2 finished! INFO @ Sun, 21 Jun 2020 18:49:24: #2 predicted fragment length is 184 bps INFO @ Sun, 21 Jun 2020 18:49:24: #2 alternative fragment length(s) may be 184 bps INFO @ Sun, 21 Jun 2020 18:49:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10_model.r INFO @ Sun, 21 Jun 2020 18:49:24: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:49:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:49:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:49:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:49:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.05_summits.bed INFO @ Sun, 21 Jun 2020 18:49:30: Done! pass1 - making usageList (178 chroms): 3 millis pass2 - checking and writing primary data (11211 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:49:31: 10000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:49:39: 11000000 INFO @ Sun, 21 Jun 2020 18:49:43: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:49:43: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:49:43: #1 total tags in treatment: 11452219 INFO @ Sun, 21 Jun 2020 18:49:43: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:49:43: #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 18:49:44: #1 tags after filtering in treatment: 11452015 INFO @ Sun, 21 Jun 2020 18:49:44: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:49:44: #1 finished! INFO @ Sun, 21 Jun 2020 18:49:44: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:49:44: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:49:45: #2 number of paired peaks: 8292 INFO @ Sun, 21 Jun 2020 18:49:45: start model_add_line... INFO @ Sun, 21 Jun 2020 18:49:45: start X-correlation... INFO @ Sun, 21 Jun 2020 18:49:45: end of X-cor INFO @ Sun, 21 Jun 2020 18:49:45: #2 finished! INFO @ Sun, 21 Jun 2020 18:49:45: #2 predicted fragment length is 184 bps INFO @ Sun, 21 Jun 2020 18:49:45: #2 alternative fragment length(s) may be 184 bps INFO @ Sun, 21 Jun 2020 18:49:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20_model.r INFO @ Sun, 21 Jun 2020 18:49:45: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:49:45: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:50:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:50:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:50:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:50:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.10_summits.bed INFO @ Sun, 21 Jun 2020 18:50:21: Done! pass1 - making usageList (142 chroms): 2 millis pass2 - checking and writing primary data (8310 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:50:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:50:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:50:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:50:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2592465/SRX2592465.20_summits.bed INFO @ Sun, 21 Jun 2020 18:50:42: Done! pass1 - making usageList (104 chroms): 1 millis pass2 - checking and writing primary data (5729 records, 4 fields): 14 millis CompletedMACS2peakCalling