Job ID = 6456845 SRX = SRX3981728 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:16:54 prefetch.2.10.7: 1) Downloading 'SRR7050596'... 2020-06-21T11:16:54 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:19:15 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:19:16 prefetch.2.10.7: 'SRR7050596' is valid 2020-06-21T11:19:16 prefetch.2.10.7: 1) 'SRR7050596' was downloaded successfully 2020-06-21T11:19:16 prefetch.2.10.7: 'SRR7050596' has 0 unresolved dependencies Read 12119326 spots for SRR7050596/SRR7050596.sra Written 12119326 spots for SRR7050596/SRR7050596.sra 2020-06-21T11:20:11 prefetch.2.10.7: 1) Downloading 'SRR7050597'... 2020-06-21T11:20:11 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:21:48 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:21:48 prefetch.2.10.7: 'SRR7050597' is valid 2020-06-21T11:21:48 prefetch.2.10.7: 1) 'SRR7050597' was downloaded successfully 2020-06-21T11:21:48 prefetch.2.10.7: 'SRR7050597' has 0 unresolved dependencies Read 12265875 spots for SRR7050597/SRR7050597.sra Written 12265875 spots for SRR7050597/SRR7050597.sra 2020-06-21T11:22:45 prefetch.2.10.7: 1) Downloading 'SRR7050598'... 2020-06-21T11:22:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:24:33 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:24:33 prefetch.2.10.7: 'SRR7050598' is valid 2020-06-21T11:24:33 prefetch.2.10.7: 1) 'SRR7050598' was downloaded successfully 2020-06-21T11:24:33 prefetch.2.10.7: 'SRR7050598' has 0 unresolved dependencies Read 12323029 spots for SRR7050598/SRR7050598.sra Written 12323029 spots for SRR7050598/SRR7050598.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: 00:09:53 36708230 reads; of these: 36708230 (100.00%) were unpaired; of these: 952030 (2.59%) aligned 0 times 27712150 (75.49%) aligned exactly 1 time 8044050 (21.91%) aligned >1 times 97.41% overall alignment rate Time searching: 00:09:53 Overall time: 00:09:53 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] 13345232 / 35756200 = 0.3732 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 20:43:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.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 20:43:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:43:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:44:01: 1000000 INFO @ Sun, 21 Jun 2020 20:44:07: 2000000 INFO @ Sun, 21 Jun 2020 20:44:13: 3000000 INFO @ Sun, 21 Jun 2020 20:44:19: 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 20:44:25: 5000000 INFO @ Sun, 21 Jun 2020 20:44:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.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 20:44:25: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:44:25: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:44:31: 1000000 INFO @ Sun, 21 Jun 2020 20:44:32: 6000000 INFO @ Sun, 21 Jun 2020 20:44:37: 2000000 INFO @ Sun, 21 Jun 2020 20:44:38: 7000000 INFO @ Sun, 21 Jun 2020 20:44:44: 3000000 INFO @ Sun, 21 Jun 2020 20:44:44: 8000000 INFO @ Sun, 21 Jun 2020 20:44:51: 9000000 INFO @ Sun, 21 Jun 2020 20:44:51: 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 20:44:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.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 20:44:55: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:44:55: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:44:57: 10000000 INFO @ Sun, 21 Jun 2020 20:44:59: 5000000 INFO @ Sun, 21 Jun 2020 20:45:02: 1000000 INFO @ Sun, 21 Jun 2020 20:45:04: 11000000 INFO @ Sun, 21 Jun 2020 20:45:06: 6000000 INFO @ Sun, 21 Jun 2020 20:45:09: 2000000 INFO @ Sun, 21 Jun 2020 20:45:11: 12000000 INFO @ Sun, 21 Jun 2020 20:45:14: 7000000 INFO @ Sun, 21 Jun 2020 20:45:16: 3000000 INFO @ Sun, 21 Jun 2020 20:45:19: 13000000 INFO @ Sun, 21 Jun 2020 20:45:22: 8000000 INFO @ Sun, 21 Jun 2020 20:45:24: 4000000 INFO @ Sun, 21 Jun 2020 20:45:26: 14000000 INFO @ Sun, 21 Jun 2020 20:45:30: 9000000 INFO @ Sun, 21 Jun 2020 20:45:31: 5000000 INFO @ Sun, 21 Jun 2020 20:45:34: 15000000 INFO @ Sun, 21 Jun 2020 20:45:38: 10000000 INFO @ Sun, 21 Jun 2020 20:45:38: 6000000 INFO @ Sun, 21 Jun 2020 20:45:43: 16000000 INFO @ Sun, 21 Jun 2020 20:45:46: 7000000 INFO @ Sun, 21 Jun 2020 20:45:47: 11000000 INFO @ Sun, 21 Jun 2020 20:45:50: 17000000 INFO @ Sun, 21 Jun 2020 20:45:53: 8000000 INFO @ Sun, 21 Jun 2020 20:45:55: 12000000 INFO @ Sun, 21 Jun 2020 20:45:58: 18000000 INFO @ Sun, 21 Jun 2020 20:46:01: 9000000 INFO @ Sun, 21 Jun 2020 20:46:03: 13000000 INFO @ Sun, 21 Jun 2020 20:46:07: 19000000 INFO @ Sun, 21 Jun 2020 20:46:08: 10000000 INFO @ Sun, 21 Jun 2020 20:46:11: 14000000 INFO @ Sun, 21 Jun 2020 20:46:15: 20000000 INFO @ Sun, 21 Jun 2020 20:46:16: 11000000 INFO @ Sun, 21 Jun 2020 20:46:19: 15000000 INFO @ Sun, 21 Jun 2020 20:46:23: 12000000 INFO @ Sun, 21 Jun 2020 20:46:24: 21000000 INFO @ Sun, 21 Jun 2020 20:46:27: 16000000 INFO @ Sun, 21 Jun 2020 20:46:30: 13000000 INFO @ Sun, 21 Jun 2020 20:46:32: 22000000 INFO @ Sun, 21 Jun 2020 20:46:35: 17000000 INFO @ Sun, 21 Jun 2020 20:46:36: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:46:36: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:46:36: #1 total tags in treatment: 22410968 INFO @ Sun, 21 Jun 2020 20:46:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:46:36: #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 20:46:37: 14000000 INFO @ Sun, 21 Jun 2020 20:46:38: #1 tags after filtering in treatment: 22410880 INFO @ Sun, 21 Jun 2020 20:46:38: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:46:38: #1 finished! INFO @ Sun, 21 Jun 2020 20:46:38: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:46:38: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 20:46:40: #2 number of paired peaks: 4812 INFO @ Sun, 21 Jun 2020 20:46:40: start model_add_line... INFO @ Sun, 21 Jun 2020 20:46:40: start X-correlation... INFO @ Sun, 21 Jun 2020 20:46:40: end of X-cor INFO @ Sun, 21 Jun 2020 20:46:40: #2 finished! INFO @ Sun, 21 Jun 2020 20:46:40: #2 predicted fragment length is 219 bps INFO @ Sun, 21 Jun 2020 20:46:40: #2 alternative fragment length(s) may be 219 bps INFO @ Sun, 21 Jun 2020 20:46:40: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05_model.r INFO @ Sun, 21 Jun 2020 20:46:40: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:46:40: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:46:43: 18000000 INFO @ Sun, 21 Jun 2020 20:46:44: 15000000 INFO @ Sun, 21 Jun 2020 20:46:51: 19000000 INFO @ Sun, 21 Jun 2020 20:46:52: 16000000 INFO @ Sun, 21 Jun 2020 20:46:59: 20000000 INFO @ Sun, 21 Jun 2020 20:46:59: 17000000 INFO @ Sun, 21 Jun 2020 20:47:06: 18000000 INFO @ Sun, 21 Jun 2020 20:47:06: 21000000 INFO @ Sun, 21 Jun 2020 20:47:14: 22000000 INFO @ Sun, 21 Jun 2020 20:47:14: 19000000 INFO @ Sun, 21 Jun 2020 20:47:17: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:47:17: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:47:17: #1 total tags in treatment: 22410968 INFO @ Sun, 21 Jun 2020 20:47:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:47:17: #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 20:47:18: #1 tags after filtering in treatment: 22410880 INFO @ Sun, 21 Jun 2020 20:47:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:47:18: #1 finished! INFO @ Sun, 21 Jun 2020 20:47:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:47:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:47:20: #2 number of paired peaks: 4812 INFO @ Sun, 21 Jun 2020 20:47:20: start model_add_line... INFO @ Sun, 21 Jun 2020 20:47:21: start X-correlation... INFO @ Sun, 21 Jun 2020 20:47:21: end of X-cor INFO @ Sun, 21 Jun 2020 20:47:21: #2 finished! INFO @ Sun, 21 Jun 2020 20:47:21: #2 predicted fragment length is 219 bps INFO @ Sun, 21 Jun 2020 20:47:21: #2 alternative fragment length(s) may be 219 bps INFO @ Sun, 21 Jun 2020 20:47:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10_model.r INFO @ Sun, 21 Jun 2020 20:47:21: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:47:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:47:21: 20000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 20:47:28: 21000000 INFO @ Sun, 21 Jun 2020 20:47:35: 22000000 INFO @ Sun, 21 Jun 2020 20:47:39: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 20:47:39: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 20:47:39: #1 total tags in treatment: 22410968 INFO @ Sun, 21 Jun 2020 20:47:39: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:47:39: #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 20:47:40: #1 tags after filtering in treatment: 22410880 INFO @ Sun, 21 Jun 2020 20:47:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:47:40: #1 finished! INFO @ Sun, 21 Jun 2020 20:47:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:47:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:47:42: #2 number of paired peaks: 4812 INFO @ Sun, 21 Jun 2020 20:47:42: start model_add_line... INFO @ Sun, 21 Jun 2020 20:47:42: start X-correlation... INFO @ Sun, 21 Jun 2020 20:47:42: end of X-cor INFO @ Sun, 21 Jun 2020 20:47:42: #2 finished! INFO @ Sun, 21 Jun 2020 20:47:42: #2 predicted fragment length is 219 bps INFO @ Sun, 21 Jun 2020 20:47:42: #2 alternative fragment length(s) may be 219 bps INFO @ Sun, 21 Jun 2020 20:47:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20_model.r INFO @ Sun, 21 Jun 2020 20:47:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:47:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:48:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:48:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05_peaks.xls INFO @ Sun, 21 Jun 2020 20:48:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:48:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.05_summits.bed INFO @ Sun, 21 Jun 2020 20:48:24: Done! pass1 - making usageList (307 chroms): 3 millis pass2 - checking and writing primary data (9431 records, 4 fields): 29 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:48:40: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:48:59: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 20:49:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10_peaks.xls INFO @ Sun, 21 Jun 2020 20:49:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:49:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.10_summits.bed INFO @ Sun, 21 Jun 2020 20:49:03: Done! pass1 - making usageList (227 chroms): 2 millis pass2 - checking and writing primary data (7429 records, 4 fields): 23 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 20:49:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20_peaks.xls INFO @ Sun, 21 Jun 2020 20:49:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 20:49:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3981728/SRX3981728.20_summits.bed INFO @ Sun, 21 Jun 2020 20:49:20: Done! pass1 - making usageList (176 chroms): 2 millis pass2 - checking and writing primary data (5399 records, 4 fields): 18 millis CompletedMACS2peakCalling