Job ID = 6454363 SRX = SRX201898 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:07:39 prefetch.2.10.7: 1) Downloading 'SRR609688'... 2020-06-21T09:07:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:17:05 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:17:05 prefetch.2.10.7: 1) 'SRR609688' was downloaded successfully Read 49307721 spots for SRR609688/SRR609688.sra Written 49307721 spots for SRR609688/SRR609688.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: 00:12:05 49307721 reads; of these: 49307721 (100.00%) were unpaired; of these: 1797642 (3.65%) aligned 0 times 38124747 (77.32%) aligned exactly 1 time 9385332 (19.03%) aligned >1 times 96.35% overall alignment rate Time searching: 00:12:06 Overall time: 00:12:06 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 20 files... [bam_rmdupse_core] 28017689 / 47510079 = 0.5897 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 18:42:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.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 18:42:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:42:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:42:11: 1000000 INFO @ Sun, 21 Jun 2020 18:42:17: 2000000 INFO @ Sun, 21 Jun 2020 18:42:22: 3000000 INFO @ Sun, 21 Jun 2020 18:42:27: 4000000 INFO @ Sun, 21 Jun 2020 18:42:32: 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 18:42:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.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 18:42:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:42:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:42:37: 6000000 INFO @ Sun, 21 Jun 2020 18:42:41: 1000000 INFO @ Sun, 21 Jun 2020 18:42:43: 7000000 INFO @ Sun, 21 Jun 2020 18:42:47: 2000000 INFO @ Sun, 21 Jun 2020 18:42:48: 8000000 INFO @ Sun, 21 Jun 2020 18:42:52: 3000000 INFO @ Sun, 21 Jun 2020 18:42:54: 9000000 INFO @ Sun, 21 Jun 2020 18:42:58: 4000000 INFO @ Sun, 21 Jun 2020 18:42:59: 10000000 INFO @ Sun, 21 Jun 2020 18:43:03: 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 18:43:05: 11000000 INFO @ Sun, 21 Jun 2020 18:43:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.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 18:43:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:43:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:43:09: 6000000 INFO @ Sun, 21 Jun 2020 18:43:11: 12000000 INFO @ Sun, 21 Jun 2020 18:43:12: 1000000 INFO @ Sun, 21 Jun 2020 18:43:14: 7000000 INFO @ Sun, 21 Jun 2020 18:43:16: 13000000 INFO @ Sun, 21 Jun 2020 18:43:17: 2000000 INFO @ Sun, 21 Jun 2020 18:43:20: 8000000 INFO @ Sun, 21 Jun 2020 18:43:22: 14000000 INFO @ Sun, 21 Jun 2020 18:43:23: 3000000 INFO @ Sun, 21 Jun 2020 18:43:25: 9000000 INFO @ Sun, 21 Jun 2020 18:43:27: 15000000 INFO @ Sun, 21 Jun 2020 18:43:28: 4000000 INFO @ Sun, 21 Jun 2020 18:43:30: 10000000 INFO @ Sun, 21 Jun 2020 18:43:33: 16000000 INFO @ Sun, 21 Jun 2020 18:43:33: 5000000 INFO @ Sun, 21 Jun 2020 18:43:36: 11000000 INFO @ Sun, 21 Jun 2020 18:43:38: 17000000 INFO @ Sun, 21 Jun 2020 18:43:39: 6000000 INFO @ Sun, 21 Jun 2020 18:43:41: 12000000 INFO @ Sun, 21 Jun 2020 18:43:44: 18000000 INFO @ Sun, 21 Jun 2020 18:43:45: 7000000 INFO @ Sun, 21 Jun 2020 18:43:47: 13000000 INFO @ Sun, 21 Jun 2020 18:43:49: 19000000 INFO @ Sun, 21 Jun 2020 18:43:50: 8000000 INFO @ Sun, 21 Jun 2020 18:43:52: 14000000 INFO @ Sun, 21 Jun 2020 18:43:52: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:43:52: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:43:52: #1 total tags in treatment: 19492390 INFO @ Sun, 21 Jun 2020 18:43:52: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:43:52: #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 18:43:53: #1 tags after filtering in treatment: 19492308 INFO @ Sun, 21 Jun 2020 18:43:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:43:53: #1 finished! INFO @ Sun, 21 Jun 2020 18:43:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:43:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:43:55: #2 number of paired peaks: 5895 INFO @ Sun, 21 Jun 2020 18:43:55: start model_add_line... INFO @ Sun, 21 Jun 2020 18:43:55: start X-correlation... INFO @ Sun, 21 Jun 2020 18:43:55: end of X-cor INFO @ Sun, 21 Jun 2020 18:43:55: #2 finished! INFO @ Sun, 21 Jun 2020 18:43:55: #2 predicted fragment length is 208 bps INFO @ Sun, 21 Jun 2020 18:43:55: #2 alternative fragment length(s) may be 208 bps INFO @ Sun, 21 Jun 2020 18:43:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05_model.r INFO @ Sun, 21 Jun 2020 18:43:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:43:55: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:43:56: 9000000 INFO @ Sun, 21 Jun 2020 18:43:57: 15000000 INFO @ Sun, 21 Jun 2020 18:44:01: 10000000 INFO @ Sun, 21 Jun 2020 18:44:03: 16000000 INFO @ Sun, 21 Jun 2020 18:44:06: 11000000 INFO @ Sun, 21 Jun 2020 18:44:08: 17000000 INFO @ Sun, 21 Jun 2020 18:44:12: 12000000 INFO @ Sun, 21 Jun 2020 18:44:14: 18000000 INFO @ Sun, 21 Jun 2020 18:44:17: 13000000 INFO @ Sun, 21 Jun 2020 18:44:20: 19000000 INFO @ Sun, 21 Jun 2020 18:44:23: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:44:23: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:44:23: #1 total tags in treatment: 19492390 INFO @ Sun, 21 Jun 2020 18:44:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:44:23: #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 18:44:23: 14000000 INFO @ Sun, 21 Jun 2020 18:44:23: #1 tags after filtering in treatment: 19492308 INFO @ Sun, 21 Jun 2020 18:44:23: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:44:23: #1 finished! INFO @ Sun, 21 Jun 2020 18:44:23: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:44:23: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:44:25: #2 number of paired peaks: 5895 INFO @ Sun, 21 Jun 2020 18:44:25: start model_add_line... INFO @ Sun, 21 Jun 2020 18:44:25: start X-correlation... INFO @ Sun, 21 Jun 2020 18:44:25: end of X-cor INFO @ Sun, 21 Jun 2020 18:44:25: #2 finished! INFO @ Sun, 21 Jun 2020 18:44:25: #2 predicted fragment length is 208 bps INFO @ Sun, 21 Jun 2020 18:44:25: #2 alternative fragment length(s) may be 208 bps INFO @ Sun, 21 Jun 2020 18:44:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10_model.r INFO @ Sun, 21 Jun 2020 18:44:25: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:44:25: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:44:28: 15000000 INFO @ Sun, 21 Jun 2020 18:44:34: 16000000 INFO @ Sun, 21 Jun 2020 18:44:39: 17000000 INFO @ Sun, 21 Jun 2020 18:44:44: 18000000 INFO @ Sun, 21 Jun 2020 18:44:50: 19000000 INFO @ Sun, 21 Jun 2020 18:44:53: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 18:44:53: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 18:44:53: #1 total tags in treatment: 19492390 INFO @ Sun, 21 Jun 2020 18:44:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:44:53: #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 18:44:53: #1 tags after filtering in treatment: 19492308 INFO @ Sun, 21 Jun 2020 18:44:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:44:53: #1 finished! INFO @ Sun, 21 Jun 2020 18:44:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:44:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:44:55: #2 number of paired peaks: 5895 INFO @ Sun, 21 Jun 2020 18:44:55: start model_add_line... INFO @ Sun, 21 Jun 2020 18:44:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:44:55: start X-correlation... INFO @ Sun, 21 Jun 2020 18:44:55: end of X-cor INFO @ Sun, 21 Jun 2020 18:44:55: #2 finished! INFO @ Sun, 21 Jun 2020 18:44:55: #2 predicted fragment length is 208 bps INFO @ Sun, 21 Jun 2020 18:44:55: #2 alternative fragment length(s) may be 208 bps INFO @ Sun, 21 Jun 2020 18:44:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20_model.r INFO @ Sun, 21 Jun 2020 18:44:55: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:44:55: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:45:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:45:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:45:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.05_summits.bed INFO @ Sun, 21 Jun 2020 18:45:18: Done! pass1 - making usageList (468 chroms): 2 millis pass2 - checking and writing primary data (11276 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:45:25: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:45:47: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:45:47: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:45:47: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.10_summits.bed INFO @ Sun, 21 Jun 2020 18:45:47: Done! pass1 - making usageList (325 chroms): 2 millis pass2 - checking and writing primary data (9567 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:45:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:46:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:46:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:46:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX201898/SRX201898.20_summits.bed INFO @ Sun, 21 Jun 2020 18:46:15: Done! pass1 - making usageList (152 chroms): 2 millis pass2 - checking and writing primary data (7812 records, 4 fields): 14 millis CompletedMACS2peakCalling