Job ID = 6455382 SRX = SRX287743 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:00:10 prefetch.2.10.7: 1) Downloading 'SRR869932'... 2020-06-21T10:00:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:03:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:03:45 prefetch.2.10.7: 1) 'SRR869932' was downloaded successfully Read 24586327 spots for SRR869932/SRR869932.sra Written 24586327 spots for SRR869932/SRR869932.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: 00:06:16 24586327 reads; of these: 24586327 (100.00%) were unpaired; of these: 2011236 (8.18%) aligned 0 times 17270959 (70.25%) aligned exactly 1 time 5304132 (21.57%) aligned >1 times 91.82% overall alignment rate Time searching: 00:06:16 Overall time: 00:06:16 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] 6149455 / 22575091 = 0.2724 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 19:16:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.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 19:16:34: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:16:34: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:16:39: 1000000 INFO @ Sun, 21 Jun 2020 19:16:45: 2000000 INFO @ Sun, 21 Jun 2020 19:16:50: 3000000 INFO @ Sun, 21 Jun 2020 19:16:55: 4000000 INFO @ Sun, 21 Jun 2020 19:17:00: 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 19:17:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.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 19:17:04: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:17:04: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:17:06: 6000000 INFO @ Sun, 21 Jun 2020 19:17:11: 1000000 INFO @ Sun, 21 Jun 2020 19:17:12: 7000000 INFO @ Sun, 21 Jun 2020 19:17:17: 2000000 INFO @ Sun, 21 Jun 2020 19:17:18: 8000000 INFO @ Sun, 21 Jun 2020 19:17:24: 3000000 INFO @ Sun, 21 Jun 2020 19:17:24: 9000000 INFO @ Sun, 21 Jun 2020 19:17:30: 10000000 INFO @ Sun, 21 Jun 2020 19:17:30: 4000000 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 19:17:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.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 19:17:34: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:17:34: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:17:35: 11000000 INFO @ Sun, 21 Jun 2020 19:17:36: 5000000 INFO @ Sun, 21 Jun 2020 19:17:40: 1000000 INFO @ Sun, 21 Jun 2020 19:17:41: 12000000 INFO @ Sun, 21 Jun 2020 19:17:43: 6000000 INFO @ Sun, 21 Jun 2020 19:17:47: 2000000 INFO @ Sun, 21 Jun 2020 19:17:48: 13000000 INFO @ Sun, 21 Jun 2020 19:17:49: 7000000 INFO @ Sun, 21 Jun 2020 19:17:53: 3000000 INFO @ Sun, 21 Jun 2020 19:17:54: 14000000 INFO @ Sun, 21 Jun 2020 19:17:56: 8000000 INFO @ Sun, 21 Jun 2020 19:17:59: 4000000 INFO @ Sun, 21 Jun 2020 19:18:00: 15000000 INFO @ Sun, 21 Jun 2020 19:18:03: 9000000 INFO @ Sun, 21 Jun 2020 19:18:05: 5000000 INFO @ Sun, 21 Jun 2020 19:18:06: 16000000 INFO @ Sun, 21 Jun 2020 19:18:09: 10000000 INFO @ Sun, 21 Jun 2020 19:18:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:18:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:18:09: #1 total tags in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:18:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:18:09: #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 19:18:10: #1 tags after filtering in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:18:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:18:10: #1 finished! INFO @ Sun, 21 Jun 2020 19:18:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:18:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:18:11: 6000000 INFO @ Sun, 21 Jun 2020 19:18:11: #2 number of paired peaks: 1231 INFO @ Sun, 21 Jun 2020 19:18:11: start model_add_line... INFO @ Sun, 21 Jun 2020 19:18:11: start X-correlation... INFO @ Sun, 21 Jun 2020 19:18:11: end of X-cor INFO @ Sun, 21 Jun 2020 19:18:11: #2 finished! INFO @ Sun, 21 Jun 2020 19:18:11: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:18:11: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:18:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05_model.r INFO @ Sun, 21 Jun 2020 19:18:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:18:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:18:16: 11000000 INFO @ Sun, 21 Jun 2020 19:18:17: 7000000 INFO @ Sun, 21 Jun 2020 19:18:22: 12000000 INFO @ Sun, 21 Jun 2020 19:18:23: 8000000 INFO @ Sun, 21 Jun 2020 19:18:29: 13000000 INFO @ Sun, 21 Jun 2020 19:18:29: 9000000 INFO @ Sun, 21 Jun 2020 19:18:35: 10000000 INFO @ Sun, 21 Jun 2020 19:18:36: 14000000 INFO @ Sun, 21 Jun 2020 19:18:41: 11000000 INFO @ Sun, 21 Jun 2020 19:18:43: 15000000 INFO @ Sun, 21 Jun 2020 19:18:47: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:18:48: 12000000 INFO @ Sun, 21 Jun 2020 19:18:50: 16000000 INFO @ Sun, 21 Jun 2020 19:18:53: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:18:53: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:18:53: #1 total tags in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:18:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:18:53: #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 19:18:53: #1 tags after filtering in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:18:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:18:53: #1 finished! INFO @ Sun, 21 Jun 2020 19:18:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:18:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:18:54: 13000000 INFO @ Sun, 21 Jun 2020 19:18:54: #2 number of paired peaks: 1231 INFO @ Sun, 21 Jun 2020 19:18:54: start model_add_line... INFO @ Sun, 21 Jun 2020 19:18:55: start X-correlation... INFO @ Sun, 21 Jun 2020 19:18:55: end of X-cor INFO @ Sun, 21 Jun 2020 19:18:55: #2 finished! INFO @ Sun, 21 Jun 2020 19:18:55: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:18:55: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:18:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10_model.r INFO @ Sun, 21 Jun 2020 19:18:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:18:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:19:00: 14000000 INFO @ Sun, 21 Jun 2020 19:19:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:19:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:19:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.05_summits.bed INFO @ Sun, 21 Jun 2020 19:19:02: Done! pass1 - making usageList (652 chroms): 1 millis pass2 - checking and writing primary data (3075 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:19:05: 15000000 INFO @ Sun, 21 Jun 2020 19:19:11: 16000000 INFO @ Sun, 21 Jun 2020 19:19:13: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:19:13: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:19:13: #1 total tags in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:19:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:19:13: #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 19:19:14: #1 tags after filtering in treatment: 16425636 INFO @ Sun, 21 Jun 2020 19:19:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:19:14: #1 finished! INFO @ Sun, 21 Jun 2020 19:19:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:19:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:19:15: #2 number of paired peaks: 1231 INFO @ Sun, 21 Jun 2020 19:19:15: start model_add_line... INFO @ Sun, 21 Jun 2020 19:19:15: start X-correlation... INFO @ Sun, 21 Jun 2020 19:19:15: end of X-cor INFO @ Sun, 21 Jun 2020 19:19:15: #2 finished! INFO @ Sun, 21 Jun 2020 19:19:15: #2 predicted fragment length is 234 bps INFO @ Sun, 21 Jun 2020 19:19:15: #2 alternative fragment length(s) may be 234 bps INFO @ Sun, 21 Jun 2020 19:19:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20_model.r INFO @ Sun, 21 Jun 2020 19:19:15: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:19:15: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:19:28: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:19:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:19:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:19:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.10_summits.bed INFO @ Sun, 21 Jun 2020 19:19:43: Done! pass1 - making usageList (590 chroms): 1 millis pass2 - checking and writing primary data (2332 records, 4 fields): 39 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:19:48: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:20:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:20:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:20:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287743/SRX287743.20_summits.bed INFO @ Sun, 21 Jun 2020 19:20:03: Done! pass1 - making usageList (521 chroms): 2 millis pass2 - checking and writing primary data (1797 records, 4 fields): 14 millis CompletedMACS2peakCalling