Job ID = 6456785 SRX = SRX3981679 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:04:54 prefetch.2.10.7: 1) Downloading 'SRR7050421'... 2020-06-21T11:04:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:06:17 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:06:18 prefetch.2.10.7: 'SRR7050421' is valid 2020-06-21T11:06:18 prefetch.2.10.7: 1) 'SRR7050421' was downloaded successfully 2020-06-21T11:06:18 prefetch.2.10.7: 'SRR7050421' has 0 unresolved dependencies Read 14615135 spots for SRR7050421/SRR7050421.sra Written 14615135 spots for SRR7050421/SRR7050421.sra 2020-06-21T11:07:14 prefetch.2.10.7: 1) Downloading 'SRR7050422'... 2020-06-21T11:07:14 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:08:51 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:08:52 prefetch.2.10.7: 'SRR7050422' is valid 2020-06-21T11:08:52 prefetch.2.10.7: 1) 'SRR7050422' was downloaded successfully 2020-06-21T11:08:52 prefetch.2.10.7: 'SRR7050422' has 0 unresolved dependencies Read 14664195 spots for SRR7050422/SRR7050422.sra Written 14664195 spots for SRR7050422/SRR7050422.sra 2020-06-21T11:09:47 prefetch.2.10.7: 1) Downloading 'SRR7050423'... 2020-06-21T11:09:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:12:25 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:12:26 prefetch.2.10.7: 'SRR7050423' is valid 2020-06-21T11:12:26 prefetch.2.10.7: 1) 'SRR7050423' was downloaded successfully 2020-06-21T11:12:26 prefetch.2.10.7: 'SRR7050423' has 0 unresolved dependencies Read 14554097 spots for SRR7050423/SRR7050423.sra Written 14554097 spots for SRR7050423/SRR7050423.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: 00:10:46 43833427 reads; of these: 43833427 (100.00%) were unpaired; of these: 1389493 (3.17%) aligned 0 times 35216705 (80.34%) aligned exactly 1 time 7227229 (16.49%) aligned >1 times 96.83% overall alignment rate Time searching: 00:10:46 Overall time: 00:10:46 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 20 files... [bam_rmdupse_core] 12120978 / 42443934 = 0.2856 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 20:32:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.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 20:32:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:32:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:32:11: 1000000 INFO @ Sun, 21 Jun 2020 20:32:16: 2000000 INFO @ Sun, 21 Jun 2020 20:32:21: 3000000 INFO @ Sun, 21 Jun 2020 20:32:26: 4000000 INFO @ Sun, 21 Jun 2020 20:32:31: 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 20:32:36: 6000000 INFO @ Sun, 21 Jun 2020 20:32:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.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 20:32:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:32:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:32:41: 7000000 INFO @ Sun, 21 Jun 2020 20:32:41: 1000000 INFO @ Sun, 21 Jun 2020 20:32:46: 8000000 INFO @ Sun, 21 Jun 2020 20:32:47: 2000000 INFO @ Sun, 21 Jun 2020 20:32:52: 9000000 INFO @ Sun, 21 Jun 2020 20:32:52: 3000000 INFO @ Sun, 21 Jun 2020 20:32:57: 10000000 INFO @ Sun, 21 Jun 2020 20:32:58: 4000000 INFO @ Sun, 21 Jun 2020 20:33:03: 11000000 INFO @ Sun, 21 Jun 2020 20:33:03: 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 20:33:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.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 20:33:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:33:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:33:08: 12000000 INFO @ Sun, 21 Jun 2020 20:33:09: 6000000 INFO @ Sun, 21 Jun 2020 20:33:11: 1000000 INFO @ Sun, 21 Jun 2020 20:33:13: 13000000 INFO @ Sun, 21 Jun 2020 20:33:14: 7000000 INFO @ Sun, 21 Jun 2020 20:33:17: 2000000 INFO @ Sun, 21 Jun 2020 20:33:19: 14000000 INFO @ Sun, 21 Jun 2020 20:33:19: 8000000 INFO @ Sun, 21 Jun 2020 20:33:22: 3000000 INFO @ Sun, 21 Jun 2020 20:33:24: 15000000 INFO @ Sun, 21 Jun 2020 20:33:25: 9000000 INFO @ Sun, 21 Jun 2020 20:33:28: 4000000 INFO @ Sun, 21 Jun 2020 20:33:30: 16000000 INFO @ Sun, 21 Jun 2020 20:33:30: 10000000 INFO @ Sun, 21 Jun 2020 20:33:33: 5000000 INFO @ Sun, 21 Jun 2020 20:33:35: 17000000 INFO @ Sun, 21 Jun 2020 20:33:36: 11000000 INFO @ Sun, 21 Jun 2020 20:33:38: 6000000 INFO @ Sun, 21 Jun 2020 20:33:41: 18000000 INFO @ Sun, 21 Jun 2020 20:33:41: 12000000 INFO @ Sun, 21 Jun 2020 20:33:43: 7000000 INFO @ Sun, 21 Jun 2020 20:33:46: 13000000 INFO @ Sun, 21 Jun 2020 20:33:47: 19000000 INFO @ Sun, 21 Jun 2020 20:33:49: 8000000 INFO @ Sun, 21 Jun 2020 20:33:52: 14000000 INFO @ Sun, 21 Jun 2020 20:33:52: 20000000 INFO @ Sun, 21 Jun 2020 20:33:54: 9000000 INFO @ Sun, 21 Jun 2020 20:33:57: 15000000 INFO @ Sun, 21 Jun 2020 20:33:57: 21000000 INFO @ Sun, 21 Jun 2020 20:33:59: 10000000 INFO @ Sun, 21 Jun 2020 20:34:02: 16000000 INFO @ Sun, 21 Jun 2020 20:34:03: 22000000 INFO @ Sun, 21 Jun 2020 20:34:04: 11000000 INFO @ Sun, 21 Jun 2020 20:34:08: 17000000 INFO @ Sun, 21 Jun 2020 20:34:08: 23000000 INFO @ Sun, 21 Jun 2020 20:34:09: 12000000 INFO @ Sun, 21 Jun 2020 20:34:13: 18000000 INFO @ Sun, 21 Jun 2020 20:34:13: 24000000 INFO @ Sun, 21 Jun 2020 20:34:14: 13000000 INFO @ Sun, 21 Jun 2020 20:34:19: 25000000 INFO @ Sun, 21 Jun 2020 20:34:19: 19000000 INFO @ Sun, 21 Jun 2020 20:34:20: 14000000 INFO @ Sun, 21 Jun 2020 20:34:24: 26000000 INFO @ Sun, 21 Jun 2020 20:34:24: 20000000 INFO @ Sun, 21 Jun 2020 20:34:25: 15000000 INFO @ Sun, 21 Jun 2020 20:34:29: 27000000 INFO @ Sun, 21 Jun 2020 20:34:30: 21000000 INFO @ Sun, 21 Jun 2020 20:34:30: 16000000 INFO @ Sun, 21 Jun 2020 20:34:35: 28000000 INFO @ Sun, 21 Jun 2020 20:34:35: 22000000 INFO @ Sun, 21 Jun 2020 20:34:35: 17000000 INFO @ Sun, 21 Jun 2020 20:34:40: 29000000 INFO @ Sun, 21 Jun 2020 20:34:40: 23000000 INFO @ Sun, 21 Jun 2020 20:34:40: 18000000 INFO @ Sun, 21 Jun 2020 20:34:45: 30000000 INFO @ Sun, 21 Jun 2020 20:34:45: 24000000 INFO @ Sun, 21 Jun 2020 20:34:46: 19000000 INFO @ Sun, 21 Jun 2020 20:34:47: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:34:47: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:34:47: #1 total tags in treatment: 30322956 INFO @ Sun, 21 Jun 2020 20:34:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:34:47: #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 20:34:48: #1 tags after filtering in treatment: 30322898 INFO @ Sun, 21 Jun 2020 20:34:48: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:34:48: #1 finished! INFO @ Sun, 21 Jun 2020 20:34:48: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:34:48: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:34:50: #2 number of paired peaks: 4862 INFO @ Sun, 21 Jun 2020 20:34:50: start model_add_line... INFO @ Sun, 21 Jun 2020 20:34:51: start X-correlation... INFO @ Sun, 21 Jun 2020 20:34:51: end of X-cor INFO @ Sun, 21 Jun 2020 20:34:51: #2 finished! INFO @ Sun, 21 Jun 2020 20:34:51: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 20:34:51: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 20:34:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05_model.r INFO @ Sun, 21 Jun 2020 20:34:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:34:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:34:51: 25000000 INFO @ Sun, 21 Jun 2020 20:34:51: 20000000 INFO @ Sun, 21 Jun 2020 20:34:56: 26000000 INFO @ Sun, 21 Jun 2020 20:34:57: 21000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:35:02: 27000000 INFO @ Sun, 21 Jun 2020 20:35:02: 22000000 INFO @ Sun, 21 Jun 2020 20:35:07: 28000000 INFO @ Sun, 21 Jun 2020 20:35:07: 23000000 INFO @ Sun, 21 Jun 2020 20:35:12: 29000000 INFO @ Sun, 21 Jun 2020 20:35:12: 24000000 INFO @ Sun, 21 Jun 2020 20:35:17: 25000000 INFO @ Sun, 21 Jun 2020 20:35:17: 30000000 INFO @ Sun, 21 Jun 2020 20:35:19: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:35:19: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:35:19: #1 total tags in treatment: 30322956 INFO @ Sun, 21 Jun 2020 20:35:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:35:19: #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 20:35:20: #1 tags after filtering in treatment: 30322898 INFO @ Sun, 21 Jun 2020 20:35:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:35:20: #1 finished! INFO @ Sun, 21 Jun 2020 20:35:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:35:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:35:22: #2 number of paired peaks: 4862 INFO @ Sun, 21 Jun 2020 20:35:22: start model_add_line... INFO @ Sun, 21 Jun 2020 20:35:22: 26000000 INFO @ Sun, 21 Jun 2020 20:35:23: start X-correlation... INFO @ Sun, 21 Jun 2020 20:35:23: end of X-cor INFO @ Sun, 21 Jun 2020 20:35:23: #2 finished! INFO @ Sun, 21 Jun 2020 20:35:23: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 20:35:23: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 20:35:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10_model.r INFO @ Sun, 21 Jun 2020 20:35:23: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:35:23: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:35:27: 27000000 INFO @ Sun, 21 Jun 2020 20:35:32: 28000000 INFO @ Sun, 21 Jun 2020 20:35:37: 29000000 INFO @ Sun, 21 Jun 2020 20:35:42: 30000000 INFO @ Sun, 21 Jun 2020 20:35:44: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:35:44: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:35:44: #1 total tags in treatment: 30322956 INFO @ Sun, 21 Jun 2020 20:35:44: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:35:44: #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 20:35:45: #1 tags after filtering in treatment: 30322898 INFO @ Sun, 21 Jun 2020 20:35:45: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:35:45: #1 finished! INFO @ Sun, 21 Jun 2020 20:35:45: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:35:45: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:35:47: #2 number of paired peaks: 4862 INFO @ Sun, 21 Jun 2020 20:35:47: start model_add_line... INFO @ Sun, 21 Jun 2020 20:35:47: start X-correlation... INFO @ Sun, 21 Jun 2020 20:35:47: end of X-cor INFO @ Sun, 21 Jun 2020 20:35:47: #2 finished! INFO @ Sun, 21 Jun 2020 20:35:47: #2 predicted fragment length is 156 bps INFO @ Sun, 21 Jun 2020 20:35:47: #2 alternative fragment length(s) may be 156 bps INFO @ Sun, 21 Jun 2020 20:35:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20_model.r INFO @ Sun, 21 Jun 2020 20:35:47: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:35:47: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:35:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:36:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:36:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:36:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.05_summits.bed INFO @ Sun, 21 Jun 2020 20:36:26: Done! pass1 - making usageList (376 chroms): 2 millis pass2 - checking and writing primary data (10479 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:36:31: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:36:53: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:37:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:37:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:37:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.10_summits.bed INFO @ Sun, 21 Jun 2020 20:37:00: Done! pass1 - making usageList (248 chroms): 2 millis pass2 - checking and writing primary data (9085 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:37:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:37:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:37:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981679/SRX3981679.20_summits.bed INFO @ Sun, 21 Jun 2020 20:37:22: Done! pass1 - making usageList (152 chroms): 2 millis pass2 - checking and writing primary data (7032 records, 4 fields): 11 millis CompletedMACS2peakCalling