Job ID = 6454267 SRX = SRX193340 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:09:39 prefetch.2.10.7: 1) Downloading 'SRR585073'... 2020-06-21T09:09:39 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:17:27 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:17:27 prefetch.2.10.7: 1) 'SRR585073' was downloaded successfully Read 39268447 spots for SRR585073/SRR585073.sra Written 39268447 spots for SRR585073/SRR585073.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:09:22 39268447 reads; of these: 39268447 (100.00%) were unpaired; of these: 1415003 (3.60%) aligned 0 times 32027474 (81.56%) aligned exactly 1 time 5825970 (14.84%) aligned >1 times 96.40% overall alignment rate Time searching: 00:09:23 Overall time: 00:09:23 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 16 files... [bam_rmdupse_core] 10231039 / 37853444 = 0.2703 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 18:37:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.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 18:37:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:25: 1000000 INFO @ Sun, 21 Jun 2020 18:37:30: 2000000 INFO @ Sun, 21 Jun 2020 18:37:36: 3000000 INFO @ Sun, 21 Jun 2020 18:37:41: 4000000 INFO @ Sun, 21 Jun 2020 18:37:47: 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 18:37:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.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 18:37:50: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:37:50: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:37:52: 6000000 INFO @ Sun, 21 Jun 2020 18:37:55: 1000000 INFO @ Sun, 21 Jun 2020 18:37:58: 7000000 INFO @ Sun, 21 Jun 2020 18:38:01: 2000000 INFO @ Sun, 21 Jun 2020 18:38:03: 8000000 INFO @ Sun, 21 Jun 2020 18:38:07: 3000000 INFO @ Sun, 21 Jun 2020 18:38:09: 9000000 INFO @ Sun, 21 Jun 2020 18:38:13: 4000000 INFO @ Sun, 21 Jun 2020 18:38:15: 10000000 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 18:38:18: 5000000 INFO @ Sun, 21 Jun 2020 18:38:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.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 18:38:20: #1 read tag files... INFO @ Sun, 21 Jun 2020 18:38:20: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 18:38:20: 11000000 INFO @ Sun, 21 Jun 2020 18:38:24: 6000000 INFO @ Sun, 21 Jun 2020 18:38:25: 1000000 INFO @ Sun, 21 Jun 2020 18:38:26: 12000000 INFO @ Sun, 21 Jun 2020 18:38:30: 7000000 INFO @ Sun, 21 Jun 2020 18:38:31: 2000000 INFO @ Sun, 21 Jun 2020 18:38:32: 13000000 INFO @ Sun, 21 Jun 2020 18:38:35: 8000000 INFO @ Sun, 21 Jun 2020 18:38:37: 3000000 INFO @ Sun, 21 Jun 2020 18:38:37: 14000000 INFO @ Sun, 21 Jun 2020 18:38:41: 9000000 INFO @ Sun, 21 Jun 2020 18:38:43: 4000000 INFO @ Sun, 21 Jun 2020 18:38:43: 15000000 INFO @ Sun, 21 Jun 2020 18:38:47: 10000000 INFO @ Sun, 21 Jun 2020 18:38:49: 5000000 INFO @ Sun, 21 Jun 2020 18:38:49: 16000000 INFO @ Sun, 21 Jun 2020 18:38:52: 11000000 INFO @ Sun, 21 Jun 2020 18:38:54: 6000000 INFO @ Sun, 21 Jun 2020 18:38:55: 17000000 INFO @ Sun, 21 Jun 2020 18:38:58: 12000000 INFO @ Sun, 21 Jun 2020 18:39:00: 7000000 INFO @ Sun, 21 Jun 2020 18:39:00: 18000000 INFO @ Sun, 21 Jun 2020 18:39:04: 13000000 INFO @ Sun, 21 Jun 2020 18:39:05: 8000000 INFO @ Sun, 21 Jun 2020 18:39:06: 19000000 INFO @ Sun, 21 Jun 2020 18:39:09: 14000000 INFO @ Sun, 21 Jun 2020 18:39:11: 9000000 INFO @ Sun, 21 Jun 2020 18:39:12: 20000000 INFO @ Sun, 21 Jun 2020 18:39:15: 15000000 INFO @ Sun, 21 Jun 2020 18:39:17: 10000000 INFO @ Sun, 21 Jun 2020 18:39:18: 21000000 INFO @ Sun, 21 Jun 2020 18:39:21: 16000000 INFO @ Sun, 21 Jun 2020 18:39:23: 11000000 INFO @ Sun, 21 Jun 2020 18:39:24: 22000000 INFO @ Sun, 21 Jun 2020 18:39:27: 17000000 INFO @ Sun, 21 Jun 2020 18:39:28: 12000000 INFO @ Sun, 21 Jun 2020 18:39:29: 23000000 INFO @ Sun, 21 Jun 2020 18:39:33: 18000000 INFO @ Sun, 21 Jun 2020 18:39:34: 13000000 INFO @ Sun, 21 Jun 2020 18:39:35: 24000000 INFO @ Sun, 21 Jun 2020 18:39:38: 19000000 INFO @ Sun, 21 Jun 2020 18:39:40: 14000000 INFO @ Sun, 21 Jun 2020 18:39:41: 25000000 INFO @ Sun, 21 Jun 2020 18:39:44: 20000000 INFO @ Sun, 21 Jun 2020 18:39:46: 15000000 INFO @ Sun, 21 Jun 2020 18:39:46: 26000000 INFO @ Sun, 21 Jun 2020 18:39:49: 21000000 INFO @ Sun, 21 Jun 2020 18:39:52: 16000000 INFO @ Sun, 21 Jun 2020 18:39:52: 27000000 INFO @ Sun, 21 Jun 2020 18:39:55: 22000000 INFO @ Sun, 21 Jun 2020 18:39:55: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:39:55: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:39:55: #1 total tags in treatment: 27622405 INFO @ Sun, 21 Jun 2020 18:39:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:39:55: #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 18:39:56: #1 tags after filtering in treatment: 27622272 INFO @ Sun, 21 Jun 2020 18:39:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:39:56: #1 finished! INFO @ Sun, 21 Jun 2020 18:39:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:39:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:39:57: 17000000 INFO @ Sun, 21 Jun 2020 18:39:58: #2 number of paired peaks: 3022 INFO @ Sun, 21 Jun 2020 18:39:58: start model_add_line... INFO @ Sun, 21 Jun 2020 18:39:58: start X-correlation... INFO @ Sun, 21 Jun 2020 18:39:58: end of X-cor INFO @ Sun, 21 Jun 2020 18:39:58: #2 finished! INFO @ Sun, 21 Jun 2020 18:39:58: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 18:39:58: #2 alternative fragment length(s) may be 3,127 bps INFO @ Sun, 21 Jun 2020 18:39:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05_model.r INFO @ Sun, 21 Jun 2020 18:39:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:39:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:40:01: 23000000 INFO @ Sun, 21 Jun 2020 18:40:03: 18000000 INFO @ Sun, 21 Jun 2020 18:40:07: 24000000 INFO @ Sun, 21 Jun 2020 18:40:09: 19000000 INFO @ Sun, 21 Jun 2020 18:40:12: 25000000 INFO @ Sun, 21 Jun 2020 18:40:14: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 18:40:18: 26000000 INFO @ Sun, 21 Jun 2020 18:40:20: 21000000 INFO @ Sun, 21 Jun 2020 18:40:24: 27000000 INFO @ Sun, 21 Jun 2020 18:40:26: 22000000 INFO @ Sun, 21 Jun 2020 18:40:28: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:40:28: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:40:28: #1 total tags in treatment: 27622405 INFO @ Sun, 21 Jun 2020 18:40:28: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:40:28: #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 18:40:28: #1 tags after filtering in treatment: 27622272 INFO @ Sun, 21 Jun 2020 18:40:28: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:40:28: #1 finished! INFO @ Sun, 21 Jun 2020 18:40:28: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:40:28: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:40:30: #2 number of paired peaks: 3022 INFO @ Sun, 21 Jun 2020 18:40:30: start model_add_line... INFO @ Sun, 21 Jun 2020 18:40:31: start X-correlation... INFO @ Sun, 21 Jun 2020 18:40:31: end of X-cor INFO @ Sun, 21 Jun 2020 18:40:31: #2 finished! INFO @ Sun, 21 Jun 2020 18:40:31: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 18:40:31: #2 alternative fragment length(s) may be 3,127 bps INFO @ Sun, 21 Jun 2020 18:40:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10_model.r INFO @ Sun, 21 Jun 2020 18:40:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:40:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 18:40:31: 23000000 INFO @ Sun, 21 Jun 2020 18:40:37: 24000000 INFO @ Sun, 21 Jun 2020 18:40:42: 25000000 INFO @ Sun, 21 Jun 2020 18:40:47: 26000000 INFO @ Sun, 21 Jun 2020 18:40:52: 27000000 INFO @ Sun, 21 Jun 2020 18:40:55: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:40:55: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 18:40:55: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 18:40:55: #1 total tags in treatment: 27622405 INFO @ Sun, 21 Jun 2020 18:40:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 18:40:55: #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 18:40:56: #1 tags after filtering in treatment: 27622272 INFO @ Sun, 21 Jun 2020 18:40:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 18:40:56: #1 finished! INFO @ Sun, 21 Jun 2020 18:40:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 18:40:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 18:40:58: #2 number of paired peaks: 3022 INFO @ Sun, 21 Jun 2020 18:40:58: start model_add_line... INFO @ Sun, 21 Jun 2020 18:40:59: start X-correlation... INFO @ Sun, 21 Jun 2020 18:40:59: end of X-cor INFO @ Sun, 21 Jun 2020 18:40:59: #2 finished! INFO @ Sun, 21 Jun 2020 18:40:59: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 18:40:59: #2 alternative fragment length(s) may be 3,127 bps INFO @ Sun, 21 Jun 2020 18:40:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20_model.r INFO @ Sun, 21 Jun 2020 18:40:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 18:40:59: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 18:41:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05_peaks.xls INFO @ Sun, 21 Jun 2020 18:41:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:41:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.05_summits.bed INFO @ Sun, 21 Jun 2020 18:41:23: Done! pass1 - making usageList (162 chroms): 3 millis pass2 - checking and writing primary data (17719 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:41:30: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:41:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 18:41:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10_peaks.xls INFO @ Sun, 21 Jun 2020 18:41:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:41:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.10_summits.bed INFO @ Sun, 21 Jun 2020 18:41:58: Done! pass1 - making usageList (145 chroms): 3 millis pass2 - checking and writing primary data (11653 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 18:42:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20_peaks.xls INFO @ Sun, 21 Jun 2020 18:42:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 18:42:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193340/SRX193340.20_summits.bed INFO @ Sun, 21 Jun 2020 18:42:24: Done! pass1 - making usageList (110 chroms): 1 millis pass2 - checking and writing primary data (4760 records, 4 fields): 8 millis CompletedMACS2peakCalling