Job ID = 6455240 SRX = SRX287584 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:54:25 prefetch.2.10.7: 1) Downloading 'SRR869727'... 2020-06-21T09:54:25 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:59:07 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:59:07 prefetch.2.10.7: 1) 'SRR869727' was downloaded successfully Read 27852683 spots for SRR869727/SRR869727.sra Written 27852683 spots for SRR869727/SRR869727.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: 00:06:23 27852683 reads; of these: 27852683 (100.00%) were unpaired; of these: 2422727 (8.70%) aligned 0 times 20509341 (73.64%) aligned exactly 1 time 4920615 (17.67%) aligned >1 times 91.30% overall alignment rate Time searching: 00:06:23 Overall time: 00:06:23 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 12 files... [bam_rmdupse_core] 7623940 / 25429956 = 0.2998 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 19:12:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.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 19:12:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:12:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:12:47: 1000000 INFO @ Sun, 21 Jun 2020 19:12:52: 2000000 INFO @ Sun, 21 Jun 2020 19:12:57: 3000000 INFO @ Sun, 21 Jun 2020 19:13:02: 4000000 INFO @ Sun, 21 Jun 2020 19:13:07: 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 19:13:11: 6000000 INFO @ Sun, 21 Jun 2020 19:13:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.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 19:13:13: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:13:13: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:13:16: 7000000 INFO @ Sun, 21 Jun 2020 19:13:17: 1000000 INFO @ Sun, 21 Jun 2020 19:13:21: 8000000 INFO @ Sun, 21 Jun 2020 19:13:22: 2000000 INFO @ Sun, 21 Jun 2020 19:13:26: 9000000 INFO @ Sun, 21 Jun 2020 19:13:27: 3000000 INFO @ Sun, 21 Jun 2020 19:13:31: 10000000 INFO @ Sun, 21 Jun 2020 19:13:32: 4000000 INFO @ Sun, 21 Jun 2020 19:13:36: 11000000 INFO @ Sun, 21 Jun 2020 19:13:37: 5000000 INFO @ Sun, 21 Jun 2020 19:13:41: 12000000 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 19:13:42: 6000000 INFO @ Sun, 21 Jun 2020 19:13:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.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 19:13:43: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:13:43: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:13:45: 13000000 INFO @ Sun, 21 Jun 2020 19:13:47: 7000000 INFO @ Sun, 21 Jun 2020 19:13:47: 1000000 INFO @ Sun, 21 Jun 2020 19:13:50: 14000000 INFO @ Sun, 21 Jun 2020 19:13:51: 8000000 INFO @ Sun, 21 Jun 2020 19:13:52: 2000000 INFO @ Sun, 21 Jun 2020 19:13:55: 15000000 INFO @ Sun, 21 Jun 2020 19:13:56: 9000000 INFO @ Sun, 21 Jun 2020 19:13:57: 3000000 INFO @ Sun, 21 Jun 2020 19:14:00: 16000000 INFO @ Sun, 21 Jun 2020 19:14:01: 10000000 INFO @ Sun, 21 Jun 2020 19:14:02: 4000000 INFO @ Sun, 21 Jun 2020 19:14:05: 17000000 INFO @ Sun, 21 Jun 2020 19:14:06: 11000000 INFO @ Sun, 21 Jun 2020 19:14:07: 5000000 INFO @ Sun, 21 Jun 2020 19:14:10: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:14:10: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:14:10: #1 total tags in treatment: 17806016 INFO @ Sun, 21 Jun 2020 19:14:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:14:10: #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 19:14:10: #1 tags after filtering in treatment: 17806014 INFO @ Sun, 21 Jun 2020 19:14:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:14:10: #1 finished! INFO @ Sun, 21 Jun 2020 19:14:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:14:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:14:11: 12000000 INFO @ Sun, 21 Jun 2020 19:14:11: #2 number of paired peaks: 1716 INFO @ Sun, 21 Jun 2020 19:14:11: start model_add_line... INFO @ Sun, 21 Jun 2020 19:14:12: start X-correlation... INFO @ Sun, 21 Jun 2020 19:14:12: end of X-cor INFO @ Sun, 21 Jun 2020 19:14:12: #2 finished! INFO @ Sun, 21 Jun 2020 19:14:12: #2 predicted fragment length is 252 bps INFO @ Sun, 21 Jun 2020 19:14:12: #2 alternative fragment length(s) may be 252 bps INFO @ Sun, 21 Jun 2020 19:14:12: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05_model.r INFO @ Sun, 21 Jun 2020 19:14:12: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:14:12: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:14:12: 6000000 INFO @ Sun, 21 Jun 2020 19:14:16: 13000000 INFO @ Sun, 21 Jun 2020 19:14:17: 7000000 INFO @ Sun, 21 Jun 2020 19:14:20: 14000000 INFO @ Sun, 21 Jun 2020 19:14:22: 8000000 INFO @ Sun, 21 Jun 2020 19:14:25: 15000000 INFO @ Sun, 21 Jun 2020 19:14:26: 9000000 INFO @ Sun, 21 Jun 2020 19:14:30: 16000000 INFO @ Sun, 21 Jun 2020 19:14:31: 10000000 INFO @ Sun, 21 Jun 2020 19:14:35: 17000000 INFO @ Sun, 21 Jun 2020 19:14:36: 11000000 INFO @ Sun, 21 Jun 2020 19:14:39: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:14:39: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:14:39: #1 total tags in treatment: 17806016 INFO @ Sun, 21 Jun 2020 19:14:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:14:39: #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 19:14:40: #1 tags after filtering in treatment: 17806014 INFO @ Sun, 21 Jun 2020 19:14:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:14:40: #1 finished! INFO @ Sun, 21 Jun 2020 19:14:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:14:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:14:41: 12000000 INFO @ Sun, 21 Jun 2020 19:14:41: #2 number of paired peaks: 1716 INFO @ Sun, 21 Jun 2020 19:14:41: start model_add_line... INFO @ Sun, 21 Jun 2020 19:14:41: start X-correlation... INFO @ Sun, 21 Jun 2020 19:14:41: end of X-cor INFO @ Sun, 21 Jun 2020 19:14:41: #2 finished! INFO @ Sun, 21 Jun 2020 19:14:41: #2 predicted fragment length is 252 bps INFO @ Sun, 21 Jun 2020 19:14:41: #2 alternative fragment length(s) may be 252 bps INFO @ Sun, 21 Jun 2020 19:14:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10_model.r INFO @ Sun, 21 Jun 2020 19:14:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:14:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:14:46: 13000000 INFO @ Sun, 21 Jun 2020 19:14:50: 14000000 INFO @ Sun, 21 Jun 2020 19:14:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:14:55: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:15:00: 16000000 INFO @ Sun, 21 Jun 2020 19:15:05: 17000000 INFO @ Sun, 21 Jun 2020 19:15:09: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:15:09: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:15:09: #1 total tags in treatment: 17806016 INFO @ Sun, 21 Jun 2020 19:15:09: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:15:09: #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 19:15:10: #1 tags after filtering in treatment: 17806014 INFO @ Sun, 21 Jun 2020 19:15:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:15:10: #1 finished! INFO @ Sun, 21 Jun 2020 19:15:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:15:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:15:11: #2 number of paired peaks: 1716 INFO @ Sun, 21 Jun 2020 19:15:11: start model_add_line... INFO @ Sun, 21 Jun 2020 19:15:11: start X-correlation... INFO @ Sun, 21 Jun 2020 19:15:11: end of X-cor INFO @ Sun, 21 Jun 2020 19:15:11: #2 finished! INFO @ Sun, 21 Jun 2020 19:15:11: #2 predicted fragment length is 252 bps INFO @ Sun, 21 Jun 2020 19:15:11: #2 alternative fragment length(s) may be 252 bps INFO @ Sun, 21 Jun 2020 19:15:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20_model.r INFO @ Sun, 21 Jun 2020 19:15:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:15:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:15:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:15:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:15:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.05_summits.bed INFO @ Sun, 21 Jun 2020 19:15:13: Done! pass1 - making usageList (642 chroms): 2 millis pass2 - checking and writing primary data (6345 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:15:23: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:15:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:15:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:15:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.10_summits.bed INFO @ Sun, 21 Jun 2020 19:15:43: Done! pass1 - making usageList (572 chroms): 2 millis pass2 - checking and writing primary data (5221 records, 4 fields): 19 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:15:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:16:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:16:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:16:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287584/SRX287584.20_summits.bed INFO @ Sun, 21 Jun 2020 19:16:13: Done! pass1 - making usageList (449 chroms): 1 millis pass2 - checking and writing primary data (4219 records, 4 fields): 17 millis CompletedMACS2peakCalling