Job ID = 6453005 SRX = SRX097618 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:15:48 prefetch.2.10.7: 1) Downloading 'SRR345569'... 2020-06-21T08:15:48 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:18:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:18:22 prefetch.2.10.7: 'SRR345569' is valid 2020-06-21T08:18:22 prefetch.2.10.7: 1) 'SRR345569' was downloaded successfully Read 23205866 spots for SRR345569/SRR345569.sra Written 23205866 spots for SRR345569/SRR345569.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: 00:05:02 23205866 reads; of these: 23205866 (100.00%) were unpaired; of these: 891342 (3.84%) aligned 0 times 18145314 (78.19%) aligned exactly 1 time 4169210 (17.97%) aligned >1 times 96.16% overall alignment rate Time searching: 00:05:02 Overall time: 00:05:02 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] 10194487 / 22314524 = 0.4569 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 17:29:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.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 17:29:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:29:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:30:00: 1000000 INFO @ Sun, 21 Jun 2020 17:30:05: 2000000 INFO @ Sun, 21 Jun 2020 17:30:10: 3000000 INFO @ Sun, 21 Jun 2020 17:30:14: 4000000 INFO @ Sun, 21 Jun 2020 17:30:19: 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 17:30:24: 6000000 INFO @ Sun, 21 Jun 2020 17:30:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.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 17:30:26: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:30:26: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:30:29: 7000000 INFO @ Sun, 21 Jun 2020 17:30:31: 1000000 INFO @ Sun, 21 Jun 2020 17:30:34: 8000000 INFO @ Sun, 21 Jun 2020 17:30:36: 2000000 INFO @ Sun, 21 Jun 2020 17:30:39: 9000000 INFO @ Sun, 21 Jun 2020 17:30:41: 3000000 INFO @ Sun, 21 Jun 2020 17:30:44: 10000000 INFO @ Sun, 21 Jun 2020 17:30:47: 4000000 INFO @ Sun, 21 Jun 2020 17:30:50: 11000000 INFO @ Sun, 21 Jun 2020 17:30:52: 5000000 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 17:30:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.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 17:30:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:30:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:30:56: 12000000 INFO @ Sun, 21 Jun 2020 17:30:57: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:30:57: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:30:57: #1 total tags in treatment: 12120037 INFO @ Sun, 21 Jun 2020 17:30:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:30:57: #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 17:30:57: 6000000 INFO @ Sun, 21 Jun 2020 17:30:58: #1 tags after filtering in treatment: 12119918 INFO @ Sun, 21 Jun 2020 17:30:58: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:30:58: #1 finished! INFO @ Sun, 21 Jun 2020 17:30:58: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:30:58: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:30:59: #2 number of paired peaks: 4992 INFO @ Sun, 21 Jun 2020 17:30:59: start model_add_line... INFO @ Sun, 21 Jun 2020 17:30:59: start X-correlation... INFO @ Sun, 21 Jun 2020 17:30:59: end of X-cor INFO @ Sun, 21 Jun 2020 17:30:59: #2 finished! INFO @ Sun, 21 Jun 2020 17:30:59: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 17:30:59: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 17:30:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05_model.r INFO @ Sun, 21 Jun 2020 17:30:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:30:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:31:01: 1000000 INFO @ Sun, 21 Jun 2020 17:31:03: 7000000 INFO @ Sun, 21 Jun 2020 17:31:06: 2000000 INFO @ Sun, 21 Jun 2020 17:31:08: 8000000 INFO @ Sun, 21 Jun 2020 17:31:12: 3000000 INFO @ Sun, 21 Jun 2020 17:31:13: 9000000 INFO @ Sun, 21 Jun 2020 17:31:17: 4000000 INFO @ Sun, 21 Jun 2020 17:31:18: 10000000 INFO @ Sun, 21 Jun 2020 17:31:22: 5000000 INFO @ Sun, 21 Jun 2020 17:31:24: 11000000 INFO @ Sun, 21 Jun 2020 17:31:28: 6000000 INFO @ Sun, 21 Jun 2020 17:31:30: 12000000 INFO @ Sun, 21 Jun 2020 17:31:31: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:31:31: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:31:31: #1 total tags in treatment: 12120037 INFO @ Sun, 21 Jun 2020 17:31:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:31:31: #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 17:31:31: #1 tags after filtering in treatment: 12119918 INFO @ Sun, 21 Jun 2020 17:31:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:31:31: #1 finished! INFO @ Sun, 21 Jun 2020 17:31:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:31:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:31:33: #2 number of paired peaks: 4992 INFO @ Sun, 21 Jun 2020 17:31:33: start model_add_line... INFO @ Sun, 21 Jun 2020 17:31:33: start X-correlation... INFO @ Sun, 21 Jun 2020 17:31:33: end of X-cor INFO @ Sun, 21 Jun 2020 17:31:33: #2 finished! INFO @ Sun, 21 Jun 2020 17:31:33: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 17:31:33: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 17:31:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10_model.r INFO @ Sun, 21 Jun 2020 17:31:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:31:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:31:33: 7000000 INFO @ Sun, 21 Jun 2020 17:31:35: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:31:38: 8000000 INFO @ Sun, 21 Jun 2020 17:31:43: 9000000 INFO @ Sun, 21 Jun 2020 17:31:48: 10000000 INFO @ Sun, 21 Jun 2020 17:31:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:31:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:31:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.05_summits.bed INFO @ Sun, 21 Jun 2020 17:31:50: Done! pass1 - making usageList (309 chroms): 3 millis pass2 - checking and writing primary data (10961 records, 4 fields): 39 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:31:53: 11000000 INFO @ Sun, 21 Jun 2020 17:31:58: 12000000 INFO @ Sun, 21 Jun 2020 17:31:59: #1 tag size is determined as 40 bps INFO @ Sun, 21 Jun 2020 17:31:59: #1 tag size = 40 INFO @ Sun, 21 Jun 2020 17:31:59: #1 total tags in treatment: 12120037 INFO @ Sun, 21 Jun 2020 17:31:59: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:31:59: #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 17:32:00: #1 tags after filtering in treatment: 12119918 INFO @ Sun, 21 Jun 2020 17:32:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:32:00: #1 finished! INFO @ Sun, 21 Jun 2020 17:32:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:32:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:32:01: #2 number of paired peaks: 4992 INFO @ Sun, 21 Jun 2020 17:32:01: start model_add_line... INFO @ Sun, 21 Jun 2020 17:32:01: start X-correlation... INFO @ Sun, 21 Jun 2020 17:32:01: end of X-cor INFO @ Sun, 21 Jun 2020 17:32:01: #2 finished! INFO @ Sun, 21 Jun 2020 17:32:01: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 17:32:01: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 17:32:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20_model.r INFO @ Sun, 21 Jun 2020 17:32:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:32:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:32:08: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:32:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:32:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:32:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.10_summits.bed INFO @ Sun, 21 Jun 2020 17:32:23: Done! pass1 - making usageList (214 chroms): 2 millis pass2 - checking and writing primary data (8055 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:32:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:32:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:32:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:32:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX097618/SRX097618.20_summits.bed INFO @ Sun, 21 Jun 2020 17:32:51: Done! pass1 - making usageList (170 chroms): 2 millis pass2 - checking and writing primary data (5593 records, 4 fields): 17 millis CompletedMACS2peakCalling