Job ID = 6455367 SRX = SRX287732 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:47:10 prefetch.2.10.7: 1) Downloading 'SRR869921'... 2020-06-21T09:47:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:49:31 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:49:31 prefetch.2.10.7: 1) 'SRR869921' was downloaded successfully Read 16585779 spots for SRR869921/SRR869921.sra Written 16585779 spots for SRR869921/SRR869921.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: 00:03:30 16585779 reads; of these: 16585779 (100.00%) were unpaired; of these: 1007505 (6.07%) aligned 0 times 14611135 (88.09%) aligned exactly 1 time 967139 (5.83%) aligned >1 times 93.93% overall alignment rate Time searching: 00:03:30 Overall time: 00:03:30 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] 3214719 / 15578274 = 0.2064 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 18:58:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.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 18:58:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:58:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:58:22: 1000000 INFO @ Sun, 21 Jun 2020 18:58:27: 2000000 INFO @ Sun, 21 Jun 2020 18:58:32: 3000000 INFO @ Sun, 21 Jun 2020 18:58:37: 4000000 INFO @ Sun, 21 Jun 2020 18:58:42: 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 18:58:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.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 18:58:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:58:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:58:47: 6000000 INFO @ Sun, 21 Jun 2020 18:58:52: 1000000 INFO @ Sun, 21 Jun 2020 18:58:52: 7000000 INFO @ Sun, 21 Jun 2020 18:58:57: 8000000 INFO @ Sun, 21 Jun 2020 18:58:57: 2000000 INFO @ Sun, 21 Jun 2020 18:59:02: 9000000 INFO @ Sun, 21 Jun 2020 18:59:03: 3000000 INFO @ Sun, 21 Jun 2020 18:59:07: 10000000 INFO @ Sun, 21 Jun 2020 18:59:09: 4000000 INFO @ Sun, 21 Jun 2020 18:59:13: 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 18:59:15: 5000000 INFO @ Sun, 21 Jun 2020 18:59:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.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 18:59:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:59:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:59:18: 12000000 INFO @ Sun, 21 Jun 2020 18:59:21: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:59:21: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:59:21: #1 total tags in treatment: 12363555 INFO @ Sun, 21 Jun 2020 18:59:21: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:59:21: #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 18:59:21: #1 tags after filtering in treatment: 12363404 INFO @ Sun, 21 Jun 2020 18:59:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:59:21: #1 finished! INFO @ Sun, 21 Jun 2020 18:59:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:59:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:59:21: 6000000 INFO @ Sun, 21 Jun 2020 18:59:21: 1000000 INFO @ Sun, 21 Jun 2020 18:59:23: #2 number of paired peaks: 11455 INFO @ Sun, 21 Jun 2020 18:59:23: start model_add_line... INFO @ Sun, 21 Jun 2020 18:59:23: start X-correlation... INFO @ Sun, 21 Jun 2020 18:59:23: end of X-cor INFO @ Sun, 21 Jun 2020 18:59:23: #2 finished! INFO @ Sun, 21 Jun 2020 18:59:23: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 18:59:23: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 18:59:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05_model.r INFO @ Sun, 21 Jun 2020 18:59:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:59:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:59:27: 2000000 INFO @ Sun, 21 Jun 2020 18:59:27: 7000000 INFO @ Sun, 21 Jun 2020 18:59:32: 3000000 INFO @ Sun, 21 Jun 2020 18:59:33: 8000000 INFO @ Sun, 21 Jun 2020 18:59:38: 4000000 INFO @ Sun, 21 Jun 2020 18:59:39: 9000000 INFO @ Sun, 21 Jun 2020 18:59:43: 5000000 INFO @ Sun, 21 Jun 2020 18:59:45: 10000000 INFO @ Sun, 21 Jun 2020 18:59:48: 6000000 INFO @ Sun, 21 Jun 2020 18:59:52: 11000000 INFO @ Sun, 21 Jun 2020 18:59:54: 7000000 INFO @ Sun, 21 Jun 2020 18:59:57: 12000000 INFO @ Sun, 21 Jun 2020 18:59:59: 8000000 INFO @ Sun, 21 Jun 2020 19:00:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:00:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:00:00: #1 total tags in treatment: 12363555 INFO @ Sun, 21 Jun 2020 19:00:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:00:00: #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 19:00:00: #1 tags after filtering in treatment: 12363404 INFO @ Sun, 21 Jun 2020 19:00:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:00:00: #1 finished! INFO @ Sun, 21 Jun 2020 19:00:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:00:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:00:02: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:00:02: #2 number of paired peaks: 11455 INFO @ Sun, 21 Jun 2020 19:00:02: start model_add_line... INFO @ Sun, 21 Jun 2020 19:00:02: start X-correlation... INFO @ Sun, 21 Jun 2020 19:00:02: end of X-cor INFO @ Sun, 21 Jun 2020 19:00:02: #2 finished! INFO @ Sun, 21 Jun 2020 19:00:02: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 19:00:02: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 19:00:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10_model.r INFO @ Sun, 21 Jun 2020 19:00:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:00:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:00:04: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:00:09: 10000000 INFO @ Sun, 21 Jun 2020 19:00:15: 11000000 INFO @ Sun, 21 Jun 2020 19:00:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:00:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:00:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.05_summits.bed INFO @ Sun, 21 Jun 2020 19:00:19: Done! pass1 - making usageList (78 chroms): 2 millis pass2 - checking and writing primary data (8283 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:00:20: 12000000 INFO @ Sun, 21 Jun 2020 19:00:22: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:00:22: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:00:22: #1 total tags in treatment: 12363555 INFO @ Sun, 21 Jun 2020 19:00:22: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:00:22: #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 19:00:22: #1 tags after filtering in treatment: 12363404 INFO @ Sun, 21 Jun 2020 19:00:22: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:00:22: #1 finished! INFO @ Sun, 21 Jun 2020 19:00:22: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:00:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:00:24: #2 number of paired peaks: 11455 INFO @ Sun, 21 Jun 2020 19:00:24: start model_add_line... INFO @ Sun, 21 Jun 2020 19:00:24: start X-correlation... INFO @ Sun, 21 Jun 2020 19:00:24: end of X-cor INFO @ Sun, 21 Jun 2020 19:00:24: #2 finished! INFO @ Sun, 21 Jun 2020 19:00:24: #2 predicted fragment length is 238 bps INFO @ Sun, 21 Jun 2020 19:00:24: #2 alternative fragment length(s) may be 238 bps INFO @ Sun, 21 Jun 2020 19:00:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20_model.r INFO @ Sun, 21 Jun 2020 19:00:24: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:00:24: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:00:41: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:00:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:00:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:00:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.10_summits.bed INFO @ Sun, 21 Jun 2020 19:00:57: Done! pass1 - making usageList (58 chroms): 2 millis pass2 - checking and writing primary data (7574 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:01:01: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:01:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:01:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:01:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287732/SRX287732.20_summits.bed INFO @ Sun, 21 Jun 2020 19:01:17: Done! pass1 - making usageList (42 chroms): 2 millis pass2 - checking and writing primary data (6439 records, 4 fields): 8 millis CompletedMACS2peakCalling