Job ID = 6454511 SRX = SRX2172429 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:29:14 prefetch.2.10.7: 1) Downloading 'SRR4252440'... 2020-06-21T09:29:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:37:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:37:08 prefetch.2.10.7: 1) 'SRR4252440' was downloaded successfully 2020-06-21T09:37:08 prefetch.2.10.7: 'SRR4252440' has 0 unresolved dependencies Read 55456429 spots for SRR4252440/SRR4252440.sra Written 55456429 spots for SRR4252440/SRR4252440.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: 00:12:58 55456429 reads; of these: 55456429 (100.00%) were unpaired; of these: 5043322 (9.09%) aligned 0 times 41793226 (75.36%) aligned exactly 1 time 8619881 (15.54%) aligned >1 times 90.91% overall alignment rate Time searching: 00:12:58 Overall time: 00:12:58 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 24 files... [bam_rmdupse_core] 19070548 / 50413107 = 0.3783 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 19:03:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.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 19:03:56: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:03:56: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:04:01: 1000000 INFO @ Sun, 21 Jun 2020 19:04:07: 2000000 INFO @ Sun, 21 Jun 2020 19:04:12: 3000000 INFO @ Sun, 21 Jun 2020 19:04:18: 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 19:04:23: 5000000 INFO @ Sun, 21 Jun 2020 19:04:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.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 19:04:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:04:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:04:30: 6000000 INFO @ Sun, 21 Jun 2020 19:04:31: 1000000 INFO @ Sun, 21 Jun 2020 19:04:36: 7000000 INFO @ Sun, 21 Jun 2020 19:04:37: 2000000 INFO @ Sun, 21 Jun 2020 19:04:42: 8000000 INFO @ Sun, 21 Jun 2020 19:04:43: 3000000 INFO @ Sun, 21 Jun 2020 19:04:48: 9000000 INFO @ Sun, 21 Jun 2020 19:04:49: 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 19:04:54: 10000000 INFO @ Sun, 21 Jun 2020 19:04:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.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 19:04:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:04:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:04:55: 5000000 INFO @ Sun, 21 Jun 2020 19:05:00: 11000000 INFO @ Sun, 21 Jun 2020 19:05:01: 1000000 INFO @ Sun, 21 Jun 2020 19:05:02: 6000000 INFO @ Sun, 21 Jun 2020 19:05:07: 12000000 INFO @ Sun, 21 Jun 2020 19:05:07: 2000000 INFO @ Sun, 21 Jun 2020 19:05:08: 7000000 INFO @ Sun, 21 Jun 2020 19:05:13: 13000000 INFO @ Sun, 21 Jun 2020 19:05:13: 3000000 INFO @ Sun, 21 Jun 2020 19:05:14: 8000000 INFO @ Sun, 21 Jun 2020 19:05:19: 14000000 INFO @ Sun, 21 Jun 2020 19:05:20: 4000000 INFO @ Sun, 21 Jun 2020 19:05:20: 9000000 INFO @ Sun, 21 Jun 2020 19:05:26: 15000000 INFO @ Sun, 21 Jun 2020 19:05:26: 5000000 INFO @ Sun, 21 Jun 2020 19:05:27: 10000000 INFO @ Sun, 21 Jun 2020 19:05:32: 16000000 INFO @ Sun, 21 Jun 2020 19:05:32: 6000000 INFO @ Sun, 21 Jun 2020 19:05:33: 11000000 INFO @ Sun, 21 Jun 2020 19:05:38: 17000000 INFO @ Sun, 21 Jun 2020 19:05:38: 7000000 INFO @ Sun, 21 Jun 2020 19:05:39: 12000000 INFO @ Sun, 21 Jun 2020 19:05:45: 18000000 INFO @ Sun, 21 Jun 2020 19:05:45: 8000000 INFO @ Sun, 21 Jun 2020 19:05:46: 13000000 INFO @ Sun, 21 Jun 2020 19:05:51: 19000000 INFO @ Sun, 21 Jun 2020 19:05:51: 9000000 INFO @ Sun, 21 Jun 2020 19:05:52: 14000000 INFO @ Sun, 21 Jun 2020 19:05:57: 20000000 INFO @ Sun, 21 Jun 2020 19:05:57: 10000000 INFO @ Sun, 21 Jun 2020 19:05:59: 15000000 INFO @ Sun, 21 Jun 2020 19:06:04: 11000000 INFO @ Sun, 21 Jun 2020 19:06:04: 21000000 INFO @ Sun, 21 Jun 2020 19:06:05: 16000000 INFO @ Sun, 21 Jun 2020 19:06:10: 12000000 INFO @ Sun, 21 Jun 2020 19:06:10: 22000000 INFO @ Sun, 21 Jun 2020 19:06:11: 17000000 INFO @ Sun, 21 Jun 2020 19:06:16: 13000000 INFO @ Sun, 21 Jun 2020 19:06:16: 23000000 INFO @ Sun, 21 Jun 2020 19:06:17: 18000000 INFO @ Sun, 21 Jun 2020 19:06:22: 24000000 INFO @ Sun, 21 Jun 2020 19:06:22: 14000000 INFO @ Sun, 21 Jun 2020 19:06:24: 19000000 INFO @ Sun, 21 Jun 2020 19:06:29: 25000000 INFO @ Sun, 21 Jun 2020 19:06:29: 15000000 INFO @ Sun, 21 Jun 2020 19:06:30: 20000000 INFO @ Sun, 21 Jun 2020 19:06:35: 26000000 INFO @ Sun, 21 Jun 2020 19:06:35: 16000000 INFO @ Sun, 21 Jun 2020 19:06:37: 21000000 INFO @ Sun, 21 Jun 2020 19:06:42: 17000000 INFO @ Sun, 21 Jun 2020 19:06:42: 27000000 INFO @ Sun, 21 Jun 2020 19:06:43: 22000000 INFO @ Sun, 21 Jun 2020 19:06:48: 18000000 INFO @ Sun, 21 Jun 2020 19:06:48: 28000000 INFO @ Sun, 21 Jun 2020 19:06:49: 23000000 INFO @ Sun, 21 Jun 2020 19:06:54: 19000000 INFO @ Sun, 21 Jun 2020 19:06:54: 29000000 INFO @ Sun, 21 Jun 2020 19:06:56: 24000000 INFO @ Sun, 21 Jun 2020 19:07:01: 20000000 INFO @ Sun, 21 Jun 2020 19:07:01: 30000000 INFO @ Sun, 21 Jun 2020 19:07:02: 25000000 INFO @ Sun, 21 Jun 2020 19:07:07: 21000000 INFO @ Sun, 21 Jun 2020 19:07:07: 31000000 INFO @ Sun, 21 Jun 2020 19:07:08: 26000000 INFO @ Sun, 21 Jun 2020 19:07:10: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:07:10: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:07:10: #1 total tags in treatment: 31342559 INFO @ Sun, 21 Jun 2020 19:07:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:10: #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 19:07:11: #1 tags after filtering in treatment: 31342493 INFO @ Sun, 21 Jun 2020 19:07:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:11: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:13: #2 number of paired peaks: 2314 INFO @ Sun, 21 Jun 2020 19:07:13: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:13: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:13: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:13: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:13: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:07:13: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 19:07:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05_model.r INFO @ Sun, 21 Jun 2020 19:07:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:14: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:07:15: 27000000 INFO @ Sun, 21 Jun 2020 19:07:21: 23000000 INFO @ Sun, 21 Jun 2020 19:07:22: 28000000 INFO @ Sun, 21 Jun 2020 19:07:27: 24000000 INFO @ Sun, 21 Jun 2020 19:07:28: 29000000 INFO @ Sun, 21 Jun 2020 19:07:34: 25000000 INFO @ Sun, 21 Jun 2020 19:07:35: 30000000 INFO @ Sun, 21 Jun 2020 19:07:40: 26000000 INFO @ Sun, 21 Jun 2020 19:07:42: 31000000 INFO @ Sun, 21 Jun 2020 19:07:44: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:07:44: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:07:44: #1 total tags in treatment: 31342559 INFO @ Sun, 21 Jun 2020 19:07:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:44: #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 19:07:45: #1 tags after filtering in treatment: 31342493 INFO @ Sun, 21 Jun 2020 19:07:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:45: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:47: 27000000 INFO @ Sun, 21 Jun 2020 19:07:47: #2 number of paired peaks: 2314 INFO @ Sun, 21 Jun 2020 19:07:47: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:48: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:48: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:48: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:48: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:07:48: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 19:07:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10_model.r INFO @ Sun, 21 Jun 2020 19:07:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:53: 28000000 INFO @ Sun, 21 Jun 2020 19:07:59: 29000000 INFO @ Sun, 21 Jun 2020 19:08:05: 30000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:08:11: 31000000 INFO @ Sun, 21 Jun 2020 19:08:13: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:08:13: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:08:13: #1 total tags in treatment: 31342559 INFO @ Sun, 21 Jun 2020 19:08:13: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:08:13: #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 19:08:14: #1 tags after filtering in treatment: 31342493 INFO @ Sun, 21 Jun 2020 19:08:14: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:08:14: #1 finished! INFO @ Sun, 21 Jun 2020 19:08:14: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:08:14: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:08:17: #2 number of paired peaks: 2314 INFO @ Sun, 21 Jun 2020 19:08:17: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:17: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:17: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:17: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:17: #2 predicted fragment length is 151 bps INFO @ Sun, 21 Jun 2020 19:08:17: #2 alternative fragment length(s) may be 151 bps INFO @ Sun, 21 Jun 2020 19:08:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20_model.r INFO @ Sun, 21 Jun 2020 19:08:17: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:17: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:08:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:08:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:08:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:08:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.05_summits.bed INFO @ Sun, 21 Jun 2020 19:08:57: Done! INFO @ Sun, 21 Jun 2020 19:08:57: #3 Call peaks for each chromosome... pass1 - making usageList (577 chroms): 3 millis pass2 - checking and writing primary data (15975 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:09:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:09:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:09:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:09:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.10_summits.bed INFO @ Sun, 21 Jun 2020 19:09:29: Done! pass1 - making usageList (468 chroms): 3 millis pass2 - checking and writing primary data (13868 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:09:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:09:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:09:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2172429/SRX2172429.20_summits.bed INFO @ Sun, 21 Jun 2020 19:09:58: Done! pass1 - making usageList (257 chroms): 2 millis pass2 - checking and writing primary data (11310 records, 4 fields): 19 millis CompletedMACS2peakCalling