Job ID = 6498312 SRX = SRX471885 Genome = dm3 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T00:07:20 prefetch.2.10.7: 1) Downloading 'SRR1170749'... 2020-06-26T00:07:20 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T00:18:50 prefetch.2.10.7: HTTPS download succeed 2020-06-26T00:18:50 prefetch.2.10.7: 1) 'SRR1170749' was downloaded successfully Read 144867196 spots for SRR1170749/SRR1170749.sra Written 144867196 spots for SRR1170749/SRR1170749.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: 00:33:39 144867196 reads; of these: 144867196 (100.00%) were unpaired; of these: 6771475 (4.67%) aligned 0 times 127473996 (87.99%) aligned exactly 1 time 10621725 (7.33%) aligned >1 times 95.33% overall alignment rate Time searching: 00:33:39 Overall time: 00:33:39 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 60 files... [bam_rmdupse_core] 105800216 / 138095721 = 0.7661 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 @ Fri, 26 Jun 2020 10:26:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.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 @ Fri, 26 Jun 2020 10:26:50: #1 read tag files... INFO @ Fri, 26 Jun 2020 10:26:50: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 10:26:55: 1000000 INFO @ Fri, 26 Jun 2020 10:26:59: 2000000 INFO @ Fri, 26 Jun 2020 10:27:04: 3000000 INFO @ Fri, 26 Jun 2020 10:27:09: 4000000 INFO @ Fri, 26 Jun 2020 10:27:14: 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 @ Fri, 26 Jun 2020 10:27:18: 6000000 INFO @ Fri, 26 Jun 2020 10:27:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.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 @ Fri, 26 Jun 2020 10:27:20: #1 read tag files... INFO @ Fri, 26 Jun 2020 10:27:20: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 10:27:23: 7000000 INFO @ Fri, 26 Jun 2020 10:27:25: 1000000 INFO @ Fri, 26 Jun 2020 10:27:28: 8000000 INFO @ Fri, 26 Jun 2020 10:27:30: 2000000 INFO @ Fri, 26 Jun 2020 10:27:33: 9000000 INFO @ Fri, 26 Jun 2020 10:27:35: 3000000 INFO @ Fri, 26 Jun 2020 10:27:37: 10000000 INFO @ Fri, 26 Jun 2020 10:27:40: 4000000 INFO @ Fri, 26 Jun 2020 10:27:42: 11000000 INFO @ Fri, 26 Jun 2020 10:27:45: 5000000 INFO @ Fri, 26 Jun 2020 10:27:47: 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 @ Fri, 26 Jun 2020 10:27:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.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 @ Fri, 26 Jun 2020 10:27:50: #1 read tag files... INFO @ Fri, 26 Jun 2020 10:27:50: #1 read treatment tags... INFO @ Fri, 26 Jun 2020 10:27:50: 6000000 INFO @ Fri, 26 Jun 2020 10:27:52: 13000000 INFO @ Fri, 26 Jun 2020 10:27:56: 1000000 INFO @ Fri, 26 Jun 2020 10:27:56: 7000000 INFO @ Fri, 26 Jun 2020 10:27:57: 14000000 INFO @ Fri, 26 Jun 2020 10:28:01: 2000000 INFO @ Fri, 26 Jun 2020 10:28:01: 15000000 INFO @ Fri, 26 Jun 2020 10:28:02: 8000000 INFO @ Fri, 26 Jun 2020 10:28:06: 16000000 INFO @ Fri, 26 Jun 2020 10:28:07: 3000000 INFO @ Fri, 26 Jun 2020 10:28:07: 9000000 INFO @ Fri, 26 Jun 2020 10:28:11: 17000000 INFO @ Fri, 26 Jun 2020 10:28:12: 4000000 INFO @ Fri, 26 Jun 2020 10:28:13: 10000000 INFO @ Fri, 26 Jun 2020 10:28:16: 18000000 INFO @ Fri, 26 Jun 2020 10:28:18: 5000000 INFO @ Fri, 26 Jun 2020 10:28:19: 11000000 INFO @ Fri, 26 Jun 2020 10:28:20: 19000000 INFO @ Fri, 26 Jun 2020 10:28:24: 6000000 INFO @ Fri, 26 Jun 2020 10:28:24: 12000000 INFO @ Fri, 26 Jun 2020 10:28:25: 20000000 INFO @ Fri, 26 Jun 2020 10:28:29: 7000000 INFO @ Fri, 26 Jun 2020 10:28:30: 21000000 INFO @ Fri, 26 Jun 2020 10:28:30: 13000000 INFO @ Fri, 26 Jun 2020 10:28:35: 22000000 INFO @ Fri, 26 Jun 2020 10:28:35: 8000000 INFO @ Fri, 26 Jun 2020 10:28:36: 14000000 INFO @ Fri, 26 Jun 2020 10:28:39: 23000000 INFO @ Fri, 26 Jun 2020 10:28:40: 9000000 INFO @ Fri, 26 Jun 2020 10:28:41: 15000000 INFO @ Fri, 26 Jun 2020 10:28:44: 24000000 INFO @ Fri, 26 Jun 2020 10:28:46: 10000000 INFO @ Fri, 26 Jun 2020 10:28:47: 16000000 INFO @ Fri, 26 Jun 2020 10:28:49: 25000000 INFO @ Fri, 26 Jun 2020 10:28:52: 11000000 INFO @ Fri, 26 Jun 2020 10:28:53: 17000000 INFO @ Fri, 26 Jun 2020 10:28:54: 26000000 INFO @ Fri, 26 Jun 2020 10:28:57: 12000000 INFO @ Fri, 26 Jun 2020 10:28:58: 18000000 INFO @ Fri, 26 Jun 2020 10:28:59: 27000000 INFO @ Fri, 26 Jun 2020 10:29:03: 13000000 INFO @ Fri, 26 Jun 2020 10:29:04: 28000000 INFO @ Fri, 26 Jun 2020 10:29:04: 19000000 INFO @ Fri, 26 Jun 2020 10:29:08: 29000000 INFO @ Fri, 26 Jun 2020 10:29:09: 14000000 INFO @ Fri, 26 Jun 2020 10:29:09: 20000000 INFO @ Fri, 26 Jun 2020 10:29:13: 30000000 INFO @ Fri, 26 Jun 2020 10:29:14: 15000000 INFO @ Fri, 26 Jun 2020 10:29:15: 21000000 INFO @ Fri, 26 Jun 2020 10:29:18: 31000000 INFO @ Fri, 26 Jun 2020 10:29:20: 16000000 INFO @ Fri, 26 Jun 2020 10:29:21: 22000000 INFO @ Fri, 26 Jun 2020 10:29:23: 32000000 INFO @ Fri, 26 Jun 2020 10:29:24: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 10:29:24: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 10:29:24: #1 total tags in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:29:24: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 10:29:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 10:29:25: #1 tags after filtering in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:29:25: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 10:29:25: #1 finished! INFO @ Fri, 26 Jun 2020 10:29:25: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 10:29:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 10:29:25: 17000000 INFO @ Fri, 26 Jun 2020 10:29:26: 23000000 INFO @ Fri, 26 Jun 2020 10:29:28: #2 number of paired peaks: 6740 INFO @ Fri, 26 Jun 2020 10:29:28: start model_add_line... INFO @ Fri, 26 Jun 2020 10:29:28: start X-correlation... INFO @ Fri, 26 Jun 2020 10:29:28: end of X-cor INFO @ Fri, 26 Jun 2020 10:29:28: #2 finished! INFO @ Fri, 26 Jun 2020 10:29:28: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 10:29:28: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 10:29:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05_model.r INFO @ Fri, 26 Jun 2020 10:29:28: #3 Call peaks... INFO @ Fri, 26 Jun 2020 10:29:28: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 10:29:31: 18000000 INFO @ Fri, 26 Jun 2020 10:29:32: 24000000 INFO @ Fri, 26 Jun 2020 10:29:36: 19000000 INFO @ Fri, 26 Jun 2020 10:29:38: 25000000 INFO @ Fri, 26 Jun 2020 10:29:42: 20000000 INFO @ Fri, 26 Jun 2020 10:29:43: 26000000 INFO @ Fri, 26 Jun 2020 10:29:47: 21000000 INFO @ Fri, 26 Jun 2020 10:29:49: 27000000 INFO @ Fri, 26 Jun 2020 10:29:53: 22000000 INFO @ Fri, 26 Jun 2020 10:29:55: 28000000 INFO @ Fri, 26 Jun 2020 10:29:58: 23000000 INFO @ Fri, 26 Jun 2020 10:30:00: 29000000 INFO @ Fri, 26 Jun 2020 10:30:04: 24000000 INFO @ Fri, 26 Jun 2020 10:30:06: 30000000 INFO @ Fri, 26 Jun 2020 10:30:10: 25000000 INFO @ Fri, 26 Jun 2020 10:30:11: 31000000 INFO @ Fri, 26 Jun 2020 10:30:15: 26000000 INFO @ Fri, 26 Jun 2020 10:30:17: 32000000 INFO @ Fri, 26 Jun 2020 10:30:19: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 10:30:19: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 10:30:19: #1 total tags in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:30:19: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 10:30:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 10:30:20: #1 tags after filtering in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:30:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 10:30:20: #1 finished! INFO @ Fri, 26 Jun 2020 10:30:20: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 10:30:20: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 26 Jun 2020 10:30:21: 27000000 INFO @ Fri, 26 Jun 2020 10:30:22: #2 number of paired peaks: 6740 INFO @ Fri, 26 Jun 2020 10:30:22: start model_add_line... INFO @ Fri, 26 Jun 2020 10:30:23: start X-correlation... INFO @ Fri, 26 Jun 2020 10:30:23: end of X-cor INFO @ Fri, 26 Jun 2020 10:30:23: #2 finished! INFO @ Fri, 26 Jun 2020 10:30:23: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 10:30:23: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 10:30:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10_model.r INFO @ Fri, 26 Jun 2020 10:30:23: #3 Call peaks... INFO @ Fri, 26 Jun 2020 10:30:23: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 10:30:26: 28000000 INFO @ Fri, 26 Jun 2020 10:30:31: 29000000 INFO @ Fri, 26 Jun 2020 10:30:35: 30000000 INFO @ Fri, 26 Jun 2020 10:30:40: 31000000 INFO @ Fri, 26 Jun 2020 10:30:45: 32000000 INFO @ Fri, 26 Jun 2020 10:30:47: #1 tag size is determined as 50 bps INFO @ Fri, 26 Jun 2020 10:30:47: #1 tag size = 50 INFO @ Fri, 26 Jun 2020 10:30:47: #1 total tags in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:30:47: #1 user defined the maximum tags... INFO @ Fri, 26 Jun 2020 10:30:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 26 Jun 2020 10:30:48: #1 tags after filtering in treatment: 32295505 INFO @ Fri, 26 Jun 2020 10:30:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 26 Jun 2020 10:30:48: #1 finished! INFO @ Fri, 26 Jun 2020 10:30:48: #2 Build Peak Model... INFO @ Fri, 26 Jun 2020 10:30:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 26 Jun 2020 10:30:50: #2 number of paired peaks: 6740 INFO @ Fri, 26 Jun 2020 10:30:50: start model_add_line... INFO @ Fri, 26 Jun 2020 10:30:51: start X-correlation... INFO @ Fri, 26 Jun 2020 10:30:51: end of X-cor INFO @ Fri, 26 Jun 2020 10:30:51: #2 finished! INFO @ Fri, 26 Jun 2020 10:30:51: #2 predicted fragment length is 196 bps INFO @ Fri, 26 Jun 2020 10:30:51: #2 alternative fragment length(s) may be 196 bps INFO @ Fri, 26 Jun 2020 10:30:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20_model.r INFO @ Fri, 26 Jun 2020 10:30:51: #3 Call peaks... INFO @ Fri, 26 Jun 2020 10:30:51: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 26 Jun 2020 10:30:57: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 10:31:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05_peaks.xls INFO @ Fri, 26 Jun 2020 10:31:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 10:31:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.05_summits.bed INFO @ Fri, 26 Jun 2020 10:31:22: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (10390 records, 4 fields): 15 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 26 Jun 2020 10:31:51: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 10:32:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10_peaks.xls INFO @ Fri, 26 Jun 2020 10:32:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 10:32:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.10_summits.bed INFO @ Fri, 26 Jun 2020 10:32:16: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (9558 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Fri, 26 Jun 2020 10:32:18: #3 Call peaks for each chromosome... INFO @ Fri, 26 Jun 2020 10:32:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20_peaks.xls INFO @ Fri, 26 Jun 2020 10:32:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20_peaks.narrowPeak INFO @ Fri, 26 Jun 2020 10:32:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm3/SRX471885/SRX471885.20_summits.bed INFO @ Fri, 26 Jun 2020 10:32:43: Done! pass1 - making usageList (15 chroms): 2 millis pass2 - checking and writing primary data (8565 records, 4 fields): 17 millis CompletedMACS2peakCalling