Job ID = 6458358 SRX = SRX5053150 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:22:37 prefetch.2.10.7: 1) Downloading 'SRR8234809'... 2020-06-21T12:22:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:24:35 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:24:35 prefetch.2.10.7: 'SRR8234809' is valid 2020-06-21T12:24:35 prefetch.2.10.7: 1) 'SRR8234809' was downloaded successfully 2020-06-21T12:24:35 prefetch.2.10.7: 'SRR8234809' has 0 unresolved dependencies Read 16094542 spots for SRR8234809/SRR8234809.sra Written 16094542 spots for SRR8234809/SRR8234809.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:04:50 16094542 reads; of these: 16094542 (100.00%) were unpaired; of these: 2551694 (15.85%) aligned 0 times 10597516 (65.85%) aligned exactly 1 time 2945332 (18.30%) aligned >1 times 84.15% overall alignment rate Time searching: 00:04:51 Overall time: 00:04:51 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] 3376632 / 13542848 = 0.2493 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 21:34:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.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 21:34:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:14: 1000000 INFO @ Sun, 21 Jun 2020 21:34:22: 2000000 INFO @ Sun, 21 Jun 2020 21:34:30: 3000000 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 21:34:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.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 21:34:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:38: 4000000 INFO @ Sun, 21 Jun 2020 21:34:43: 1000000 INFO @ Sun, 21 Jun 2020 21:34:46: 5000000 INFO @ Sun, 21 Jun 2020 21:34:50: 2000000 INFO @ Sun, 21 Jun 2020 21:34:53: 6000000 INFO @ Sun, 21 Jun 2020 21:34:56: 3000000 INFO @ Sun, 21 Jun 2020 21:35:01: 7000000 INFO @ Sun, 21 Jun 2020 21:35:03: 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 21:35:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.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 21:35:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:35:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:35:08: 8000000 INFO @ Sun, 21 Jun 2020 21:35:10: 5000000 INFO @ Sun, 21 Jun 2020 21:35:13: 1000000 INFO @ Sun, 21 Jun 2020 21:35:16: 9000000 INFO @ Sun, 21 Jun 2020 21:35:17: 6000000 INFO @ Sun, 21 Jun 2020 21:35:20: 2000000 INFO @ Sun, 21 Jun 2020 21:35:24: 7000000 INFO @ Sun, 21 Jun 2020 21:35:24: 10000000 INFO @ Sun, 21 Jun 2020 21:35:25: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:35:25: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:35:25: #1 total tags in treatment: 10166216 INFO @ Sun, 21 Jun 2020 21:35:25: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:25: #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 21:35:26: #1 tags after filtering in treatment: 10166054 INFO @ Sun, 21 Jun 2020 21:35:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:26: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:26: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:26: #2 number of paired peaks: 1266 INFO @ Sun, 21 Jun 2020 21:35:26: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:26: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:26: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:26: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:26: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:35:26: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:35:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05_model.r INFO @ Sun, 21 Jun 2020 21:35:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:27: 3000000 INFO @ Sun, 21 Jun 2020 21:35:31: 8000000 INFO @ Sun, 21 Jun 2020 21:35:34: 4000000 INFO @ Sun, 21 Jun 2020 21:35:38: 9000000 INFO @ Sun, 21 Jun 2020 21:35:41: 5000000 INFO @ Sun, 21 Jun 2020 21:35:44: 10000000 INFO @ Sun, 21 Jun 2020 21:35:46: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:35:46: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:35:46: #1 total tags in treatment: 10166216 INFO @ Sun, 21 Jun 2020 21:35:46: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:46: #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 21:35:46: #1 tags after filtering in treatment: 10166054 INFO @ Sun, 21 Jun 2020 21:35:46: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:46: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:46: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:46: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:47: #2 number of paired peaks: 1266 INFO @ Sun, 21 Jun 2020 21:35:47: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:47: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:47: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:47: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:47: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:35:47: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:35:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10_model.r INFO @ Sun, 21 Jun 2020 21:35:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:47: 6000000 INFO @ Sun, 21 Jun 2020 21:35:49: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:35:53: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:35:59: 8000000 INFO @ Sun, 21 Jun 2020 21:36:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.05_summits.bed INFO @ Sun, 21 Jun 2020 21:36:01: Done! pass1 - making usageList (266 chroms): 1 millis pass2 - checking and writing primary data (2947 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:06: 9000000 INFO @ Sun, 21 Jun 2020 21:36:12: 10000000 INFO @ Sun, 21 Jun 2020 21:36:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:13: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 21:36:13: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 21:36:13: #1 total tags in treatment: 10166216 INFO @ Sun, 21 Jun 2020 21:36:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:36:13: #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 21:36:13: #1 tags after filtering in treatment: 10166054 INFO @ Sun, 21 Jun 2020 21:36:13: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:36:13: #1 finished! INFO @ Sun, 21 Jun 2020 21:36:13: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:36:13: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:36:14: #2 number of paired peaks: 1266 INFO @ Sun, 21 Jun 2020 21:36:14: start model_add_line... INFO @ Sun, 21 Jun 2020 21:36:14: start X-correlation... INFO @ Sun, 21 Jun 2020 21:36:14: end of X-cor INFO @ Sun, 21 Jun 2020 21:36:14: #2 finished! INFO @ Sun, 21 Jun 2020 21:36:14: #2 predicted fragment length is 161 bps INFO @ Sun, 21 Jun 2020 21:36:14: #2 alternative fragment length(s) may be 161 bps INFO @ Sun, 21 Jun 2020 21:36:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20_model.r INFO @ Sun, 21 Jun 2020 21:36:14: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:36:14: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:36:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.10_summits.bed INFO @ Sun, 21 Jun 2020 21:36:23: Done! pass1 - making usageList (186 chroms): 1 millis pass2 - checking and writing primary data (1385 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:36:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5053150/SRX5053150.20_summits.bed INFO @ Sun, 21 Jun 2020 21:36:51: Done! pass1 - making usageList (145 chroms): 1 millis pass2 - checking and writing primary data (584 records, 4 fields): 6 millis CompletedMACS2peakCalling