Job ID = 6455287 SRX = SRX287664 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:05:25 prefetch.2.10.7: 1) Downloading 'SRR869852'... 2020-06-21T10:05:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:08:58 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:08:59 prefetch.2.10.7: 'SRR869852' is valid 2020-06-21T10:08:59 prefetch.2.10.7: 1) 'SRR869852' was downloaded successfully Read 14362381 spots for SRR869852/SRR869852.sra Written 14362381 spots for SRR869852/SRR869852.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: 00:03:23 14362381 reads; of these: 14362381 (100.00%) were unpaired; of these: 960585 (6.69%) aligned 0 times 12215910 (85.05%) aligned exactly 1 time 1185886 (8.26%) aligned >1 times 93.31% overall alignment rate Time searching: 00:03:23 Overall time: 00:03:23 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] 1681763 / 13401796 = 0.1255 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 19:17:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.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 19:17:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:17:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:18:00: 1000000 INFO @ Sun, 21 Jun 2020 19:18:07: 2000000 INFO @ Sun, 21 Jun 2020 19:18:14: 3000000 INFO @ Sun, 21 Jun 2020 19:18:21: 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 19:18:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.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 19:18:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:18:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:18:28: 5000000 INFO @ Sun, 21 Jun 2020 19:18:31: 1000000 INFO @ Sun, 21 Jun 2020 19:18:36: 6000000 INFO @ Sun, 21 Jun 2020 19:18:37: 2000000 INFO @ Sun, 21 Jun 2020 19:18:43: 7000000 INFO @ Sun, 21 Jun 2020 19:18:44: 3000000 INFO @ Sun, 21 Jun 2020 19:18:50: 8000000 INFO @ Sun, 21 Jun 2020 19:18:51: 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 19:18:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.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 19:18:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:18:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:18:58: 5000000 INFO @ Sun, 21 Jun 2020 19:18:58: 9000000 INFO @ Sun, 21 Jun 2020 19:19:00: 1000000 INFO @ Sun, 21 Jun 2020 19:19:05: 6000000 INFO @ Sun, 21 Jun 2020 19:19:06: 10000000 INFO @ Sun, 21 Jun 2020 19:19:06: 2000000 INFO @ Sun, 21 Jun 2020 19:19:12: 7000000 INFO @ Sun, 21 Jun 2020 19:19:13: 3000000 INFO @ Sun, 21 Jun 2020 19:19:14: 11000000 INFO @ Sun, 21 Jun 2020 19:19:18: 8000000 INFO @ Sun, 21 Jun 2020 19:19:19: 4000000 INFO @ Sun, 21 Jun 2020 19:19:20: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:19:20: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:19:20: #1 total tags in treatment: 11720033 INFO @ Sun, 21 Jun 2020 19:19:20: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:19:20: #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 19:19:21: #1 tags after filtering in treatment: 11720004 INFO @ Sun, 21 Jun 2020 19:19:21: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:19:21: #1 finished! INFO @ Sun, 21 Jun 2020 19:19:21: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:19:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:19:22: #2 number of paired peaks: 1455 INFO @ Sun, 21 Jun 2020 19:19:22: start model_add_line... INFO @ Sun, 21 Jun 2020 19:19:22: start X-correlation... INFO @ Sun, 21 Jun 2020 19:19:22: end of X-cor INFO @ Sun, 21 Jun 2020 19:19:22: #2 finished! INFO @ Sun, 21 Jun 2020 19:19:22: #2 predicted fragment length is 251 bps INFO @ Sun, 21 Jun 2020 19:19:22: #2 alternative fragment length(s) may be 3,251,271 bps INFO @ Sun, 21 Jun 2020 19:19:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05_model.r INFO @ Sun, 21 Jun 2020 19:19:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:19:22: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:19:25: 9000000 INFO @ Sun, 21 Jun 2020 19:19:25: 5000000 INFO @ Sun, 21 Jun 2020 19:19:31: 6000000 INFO @ Sun, 21 Jun 2020 19:19:31: 10000000 INFO @ Sun, 21 Jun 2020 19:19:37: 7000000 INFO @ Sun, 21 Jun 2020 19:19:39: 11000000 INFO @ Sun, 21 Jun 2020 19:19:44: 8000000 INFO @ Sun, 21 Jun 2020 19:19:44: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:19:44: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:19:44: #1 total tags in treatment: 11720033 INFO @ Sun, 21 Jun 2020 19:19:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:19:44: #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 19:19:45: #1 tags after filtering in treatment: 11720004 INFO @ Sun, 21 Jun 2020 19:19:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:19:45: #1 finished! INFO @ Sun, 21 Jun 2020 19:19:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:19:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:19:46: #2 number of paired peaks: 1455 INFO @ Sun, 21 Jun 2020 19:19:46: start model_add_line... INFO @ Sun, 21 Jun 2020 19:19:46: start X-correlation... INFO @ Sun, 21 Jun 2020 19:19:46: end of X-cor INFO @ Sun, 21 Jun 2020 19:19:46: #2 finished! INFO @ Sun, 21 Jun 2020 19:19:46: #2 predicted fragment length is 251 bps INFO @ Sun, 21 Jun 2020 19:19:46: #2 alternative fragment length(s) may be 3,251,271 bps INFO @ Sun, 21 Jun 2020 19:19:46: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10_model.r INFO @ Sun, 21 Jun 2020 19:19:46: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:19:46: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:19:50: 9000000 INFO @ Sun, 21 Jun 2020 19:19:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:19:56: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:20:03: 11000000 INFO @ Sun, 21 Jun 2020 19:20:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:20:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:20:09: #1 total tags in treatment: 11720033 INFO @ Sun, 21 Jun 2020 19:20:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:20:09: #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 19:20:09: #1 tags after filtering in treatment: 11720004 INFO @ Sun, 21 Jun 2020 19:20:09: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:20:09: #1 finished! INFO @ Sun, 21 Jun 2020 19:20:09: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:20:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:20:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:20:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:20:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.05_summits.bed INFO @ Sun, 21 Jun 2020 19:20:10: Done! pass1 - making usageList (92 chroms): 2 millis pass2 - checking and writing primary data (3551 records, 4 fields): 10 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:20:10: #2 number of paired peaks: 1455 INFO @ Sun, 21 Jun 2020 19:20:10: start model_add_line... INFO @ Sun, 21 Jun 2020 19:20:10: start X-correlation... INFO @ Sun, 21 Jun 2020 19:20:10: end of X-cor INFO @ Sun, 21 Jun 2020 19:20:10: #2 finished! INFO @ Sun, 21 Jun 2020 19:20:10: #2 predicted fragment length is 251 bps INFO @ Sun, 21 Jun 2020 19:20:10: #2 alternative fragment length(s) may be 3,251,271 bps INFO @ Sun, 21 Jun 2020 19:20:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20_model.r INFO @ Sun, 21 Jun 2020 19:20:10: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:20:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:20:16: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:20:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:20:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:20:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.10_summits.bed INFO @ Sun, 21 Jun 2020 19:20:30: Done! pass1 - making usageList (79 chroms): 2 millis pass2 - checking and writing primary data (1633 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:20:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:20:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:20:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:20:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287664/SRX287664.20_summits.bed INFO @ Sun, 21 Jun 2020 19:20:53: Done! pass1 - making usageList (47 chroms): 1 millis pass2 - checking and writing primary data (476 records, 4 fields): 4 millis CompletedMACS2peakCalling