Job ID = 6458026 SRX = SRX4941150 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:09:40 prefetch.2.10.7: 1) Downloading 'SRR8114853'... 2020-06-21T12:09:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:20:55 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:20:55 prefetch.2.10.7: 1) 'SRR8114853' was downloaded successfully 2020-06-21T12:20:55 prefetch.2.10.7: 'SRR8114853' has 0 unresolved dependencies Read 87438934 spots for SRR8114853/SRR8114853.sra Written 87438934 spots for SRR8114853/SRR8114853.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: 00:32:46 87438934 reads; of these: 87438934 (100.00%) were unpaired; of these: 12274692 (14.04%) aligned 0 times 54793324 (62.66%) aligned exactly 1 time 20370918 (23.30%) aligned >1 times 85.96% overall alignment rate Time searching: 00:32:46 Overall time: 00:32:46 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 32 files... [bam_rmdupse_core] 39152819 / 75164242 = 0.5209 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 22:18:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.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 22:18:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:18:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:18:48: 1000000 INFO @ Sun, 21 Jun 2020 22:18:55: 2000000 INFO @ Sun, 21 Jun 2020 22:19:01: 3000000 INFO @ Sun, 21 Jun 2020 22:19:07: 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 22:19:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.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 22:19:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:19:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:19:14: 5000000 INFO @ Sun, 21 Jun 2020 22:19:19: 1000000 INFO @ Sun, 21 Jun 2020 22:19:20: 6000000 INFO @ Sun, 21 Jun 2020 22:19:25: 2000000 INFO @ Sun, 21 Jun 2020 22:19:27: 7000000 INFO @ Sun, 21 Jun 2020 22:19:32: 3000000 INFO @ Sun, 21 Jun 2020 22:19:33: 8000000 INFO @ Sun, 21 Jun 2020 22:19:38: 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 22:19:40: 9000000 INFO @ Sun, 21 Jun 2020 22:19:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.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 22:19:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:19:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:19:45: 5000000 INFO @ Sun, 21 Jun 2020 22:19:47: 10000000 INFO @ Sun, 21 Jun 2020 22:19:49: 1000000 INFO @ Sun, 21 Jun 2020 22:19:52: 6000000 INFO @ Sun, 21 Jun 2020 22:19:54: 11000000 INFO @ Sun, 21 Jun 2020 22:19:56: 2000000 INFO @ Sun, 21 Jun 2020 22:19:59: 7000000 INFO @ Sun, 21 Jun 2020 22:20:00: 12000000 INFO @ Sun, 21 Jun 2020 22:20:02: 3000000 INFO @ Sun, 21 Jun 2020 22:20:05: 8000000 INFO @ Sun, 21 Jun 2020 22:20:07: 13000000 INFO @ Sun, 21 Jun 2020 22:20:09: 4000000 INFO @ Sun, 21 Jun 2020 22:20:12: 9000000 INFO @ Sun, 21 Jun 2020 22:20:14: 14000000 INFO @ Sun, 21 Jun 2020 22:20:16: 5000000 INFO @ Sun, 21 Jun 2020 22:20:19: 10000000 INFO @ Sun, 21 Jun 2020 22:20:20: 15000000 INFO @ Sun, 21 Jun 2020 22:20:23: 6000000 INFO @ Sun, 21 Jun 2020 22:20:25: 11000000 INFO @ Sun, 21 Jun 2020 22:20:27: 16000000 INFO @ Sun, 21 Jun 2020 22:20:29: 7000000 INFO @ Sun, 21 Jun 2020 22:20:32: 12000000 INFO @ Sun, 21 Jun 2020 22:20:34: 17000000 INFO @ Sun, 21 Jun 2020 22:20:36: 8000000 INFO @ Sun, 21 Jun 2020 22:20:39: 13000000 INFO @ Sun, 21 Jun 2020 22:20:41: 18000000 INFO @ Sun, 21 Jun 2020 22:20:43: 9000000 INFO @ Sun, 21 Jun 2020 22:20:46: 14000000 INFO @ Sun, 21 Jun 2020 22:20:48: 19000000 INFO @ Sun, 21 Jun 2020 22:20:50: 10000000 INFO @ Sun, 21 Jun 2020 22:20:53: 15000000 INFO @ Sun, 21 Jun 2020 22:20:55: 20000000 INFO @ Sun, 21 Jun 2020 22:20:57: 11000000 INFO @ Sun, 21 Jun 2020 22:20:59: 16000000 INFO @ Sun, 21 Jun 2020 22:21:02: 21000000 INFO @ Sun, 21 Jun 2020 22:21:03: 12000000 INFO @ Sun, 21 Jun 2020 22:21:06: 17000000 INFO @ Sun, 21 Jun 2020 22:21:09: 22000000 INFO @ Sun, 21 Jun 2020 22:21:10: 13000000 INFO @ Sun, 21 Jun 2020 22:21:13: 18000000 INFO @ Sun, 21 Jun 2020 22:21:16: 23000000 INFO @ Sun, 21 Jun 2020 22:21:17: 14000000 INFO @ Sun, 21 Jun 2020 22:21:20: 19000000 INFO @ Sun, 21 Jun 2020 22:21:23: 24000000 INFO @ Sun, 21 Jun 2020 22:21:24: 15000000 INFO @ Sun, 21 Jun 2020 22:21:27: 20000000 INFO @ Sun, 21 Jun 2020 22:21:30: 25000000 INFO @ Sun, 21 Jun 2020 22:21:31: 16000000 INFO @ Sun, 21 Jun 2020 22:21:34: 21000000 INFO @ Sun, 21 Jun 2020 22:21:37: 26000000 INFO @ Sun, 21 Jun 2020 22:21:38: 17000000 INFO @ Sun, 21 Jun 2020 22:21:41: 22000000 INFO @ Sun, 21 Jun 2020 22:21:44: 27000000 INFO @ Sun, 21 Jun 2020 22:21:45: 18000000 INFO @ Sun, 21 Jun 2020 22:21:48: 23000000 INFO @ Sun, 21 Jun 2020 22:21:51: 28000000 INFO @ Sun, 21 Jun 2020 22:21:51: 19000000 INFO @ Sun, 21 Jun 2020 22:21:55: 24000000 INFO @ Sun, 21 Jun 2020 22:21:58: 29000000 INFO @ Sun, 21 Jun 2020 22:21:58: 20000000 INFO @ Sun, 21 Jun 2020 22:22:02: 25000000 INFO @ Sun, 21 Jun 2020 22:22:05: 30000000 INFO @ Sun, 21 Jun 2020 22:22:05: 21000000 INFO @ Sun, 21 Jun 2020 22:22:09: 26000000 INFO @ Sun, 21 Jun 2020 22:22:12: 22000000 INFO @ Sun, 21 Jun 2020 22:22:12: 31000000 INFO @ Sun, 21 Jun 2020 22:22:16: 27000000 INFO @ Sun, 21 Jun 2020 22:22:19: 23000000 INFO @ Sun, 21 Jun 2020 22:22:19: 32000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:22:23: 28000000 INFO @ Sun, 21 Jun 2020 22:22:25: 24000000 INFO @ Sun, 21 Jun 2020 22:22:26: 33000000 INFO @ Sun, 21 Jun 2020 22:22:30: 29000000 INFO @ Sun, 21 Jun 2020 22:22:32: 25000000 INFO @ Sun, 21 Jun 2020 22:22:33: 34000000 INFO @ Sun, 21 Jun 2020 22:22:37: 30000000 INFO @ Sun, 21 Jun 2020 22:22:39: 26000000 INFO @ Sun, 21 Jun 2020 22:22:39: 35000000 INFO @ Sun, 21 Jun 2020 22:22:44: 31000000 INFO @ Sun, 21 Jun 2020 22:22:46: 27000000 INFO @ Sun, 21 Jun 2020 22:22:46: 36000000 INFO @ Sun, 21 Jun 2020 22:22:47: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 22:22:47: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 22:22:47: #1 total tags in treatment: 36011423 INFO @ Sun, 21 Jun 2020 22:22:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:22:47: #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 22:22:48: #1 tags after filtering in treatment: 36011347 INFO @ Sun, 21 Jun 2020 22:22:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:22:48: #1 finished! INFO @ Sun, 21 Jun 2020 22:22:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:22:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:22:50: #2 number of paired peaks: 1648 INFO @ Sun, 21 Jun 2020 22:22:50: start model_add_line... INFO @ Sun, 21 Jun 2020 22:22:50: 32000000 INFO @ Sun, 21 Jun 2020 22:22:51: start X-correlation... INFO @ Sun, 21 Jun 2020 22:22:51: end of X-cor INFO @ Sun, 21 Jun 2020 22:22:51: #2 finished! INFO @ Sun, 21 Jun 2020 22:22:51: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 22:22:51: #2 alternative fragment length(s) may be 3,154 bps INFO @ Sun, 21 Jun 2020 22:22:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05_model.r INFO @ Sun, 21 Jun 2020 22:22:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:22:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:22:53: 28000000 INFO @ Sun, 21 Jun 2020 22:22:57: 33000000 INFO @ Sun, 21 Jun 2020 22:22:59: 29000000 INFO @ Sun, 21 Jun 2020 22:23:04: 34000000 INFO @ Sun, 21 Jun 2020 22:23:07: 30000000 INFO @ Sun, 21 Jun 2020 22:23:11: 35000000 INFO @ Sun, 21 Jun 2020 22:23:13: 31000000 INFO @ Sun, 21 Jun 2020 22:23:18: 36000000 INFO @ Sun, 21 Jun 2020 22:23:18: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 22:23:18: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 22:23:18: #1 total tags in treatment: 36011423 INFO @ Sun, 21 Jun 2020 22:23:18: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:23:18: #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 22:23:19: #1 tags after filtering in treatment: 36011347 INFO @ Sun, 21 Jun 2020 22:23:19: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:23:19: #1 finished! INFO @ Sun, 21 Jun 2020 22:23:19: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:23:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:23:20: 32000000 INFO @ Sun, 21 Jun 2020 22:23:21: #2 number of paired peaks: 1648 INFO @ Sun, 21 Jun 2020 22:23:21: start model_add_line... INFO @ Sun, 21 Jun 2020 22:23:22: start X-correlation... INFO @ Sun, 21 Jun 2020 22:23:22: end of X-cor INFO @ Sun, 21 Jun 2020 22:23:22: #2 finished! INFO @ Sun, 21 Jun 2020 22:23:22: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 22:23:22: #2 alternative fragment length(s) may be 3,154 bps INFO @ Sun, 21 Jun 2020 22:23:22: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10_model.r INFO @ Sun, 21 Jun 2020 22:23:22: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:23:22: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:23:26: 33000000 INFO @ Sun, 21 Jun 2020 22:23:32: 34000000 INFO @ Sun, 21 Jun 2020 22:23:38: 35000000 INFO @ Sun, 21 Jun 2020 22:23:44: 36000000 INFO @ Sun, 21 Jun 2020 22:23:44: #1 tag size is determined as 75 bps INFO @ Sun, 21 Jun 2020 22:23:44: #1 tag size = 75 INFO @ Sun, 21 Jun 2020 22:23:44: #1 total tags in treatment: 36011423 INFO @ Sun, 21 Jun 2020 22:23:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:23:44: #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 22:23:45: #1 tags after filtering in treatment: 36011347 INFO @ Sun, 21 Jun 2020 22:23:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:23:45: #1 finished! INFO @ Sun, 21 Jun 2020 22:23:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:23:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:23:48: #2 number of paired peaks: 1648 INFO @ Sun, 21 Jun 2020 22:23:48: start model_add_line... INFO @ Sun, 21 Jun 2020 22:23:48: start X-correlation... INFO @ Sun, 21 Jun 2020 22:23:48: end of X-cor INFO @ Sun, 21 Jun 2020 22:23:48: #2 finished! INFO @ Sun, 21 Jun 2020 22:23:48: #2 predicted fragment length is 154 bps INFO @ Sun, 21 Jun 2020 22:23:48: #2 alternative fragment length(s) may be 3,154 bps INFO @ Sun, 21 Jun 2020 22:23:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20_model.r INFO @ Sun, 21 Jun 2020 22:23:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:23:48: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:24:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:24:44: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:24:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:24:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:24:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.05_summits.bed INFO @ Sun, 21 Jun 2020 22:24:48: Done! pass1 - making usageList (611 chroms): 3 millis pass2 - checking and writing primary data (13511 records, 4 fields): 30 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:25:09: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:25:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:25:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:25:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.10_summits.bed INFO @ Sun, 21 Jun 2020 22:25:20: Done! pass1 - making usageList (549 chroms): 2 millis pass2 - checking and writing primary data (10728 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:25:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:25:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:25:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4941150/SRX4941150.20_summits.bed INFO @ Sun, 21 Jun 2020 22:25:45: Done! pass1 - making usageList (472 chroms): 2 millis pass2 - checking and writing primary data (7349 records, 4 fields): 19 millis CompletedMACS2peakCalling