Job ID = 6455880 SRX = SRX3020546 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T10:23:22 prefetch.2.10.7: 1) Downloading 'SRR5850444'... 2020-06-21T10:23:22 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:24:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:24:08 prefetch.2.10.7: 'SRR5850444' is valid 2020-06-21T10:24:08 prefetch.2.10.7: 1) 'SRR5850444' was downloaded successfully 2020-06-21T10:24:08 prefetch.2.10.7: 'SRR5850444' has 0 unresolved dependencies Read 7197343 spots for SRR5850444/SRR5850444.sra Written 7197343 spots for SRR5850444/SRR5850444.sra 2020-06-21T10:24:47 prefetch.2.10.7: 1) Downloading 'SRR5850445'... 2020-06-21T10:24:47 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:25:42 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:25:42 prefetch.2.10.7: 'SRR5850445' is valid 2020-06-21T10:25:42 prefetch.2.10.7: 1) 'SRR5850445' was downloaded successfully 2020-06-21T10:25:42 prefetch.2.10.7: 'SRR5850445' has 0 unresolved dependencies Read 7177282 spots for SRR5850445/SRR5850445.sra Written 7177282 spots for SRR5850445/SRR5850445.sra 2020-06-21T10:26:16 prefetch.2.10.7: 1) Downloading 'SRR5850446'... 2020-06-21T10:26:16 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:27:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:27:22 prefetch.2.10.7: 'SRR5850446' is valid 2020-06-21T10:27:22 prefetch.2.10.7: 1) 'SRR5850446' was downloaded successfully 2020-06-21T10:27:22 prefetch.2.10.7: 'SRR5850446' has 0 unresolved dependencies Read 7207558 spots for SRR5850446/SRR5850446.sra Written 7207558 spots for SRR5850446/SRR5850446.sra 2020-06-21T10:27:56 prefetch.2.10.7: 1) Downloading 'SRR5850447'... 2020-06-21T10:27:56 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:28:43 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:28:43 prefetch.2.10.7: 'SRR5850447' is valid 2020-06-21T10:28:43 prefetch.2.10.7: 1) 'SRR5850447' was downloaded successfully 2020-06-21T10:28:43 prefetch.2.10.7: 'SRR5850447' has 0 unresolved dependencies Read 7133298 spots for SRR5850447/SRR5850447.sra Written 7133298 spots for SRR5850447/SRR5850447.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: 00:06:26 28715481 reads; of these: 28715481 (100.00%) were unpaired; of these: 5073715 (17.67%) aligned 0 times 18957908 (66.02%) aligned exactly 1 time 4683858 (16.31%) aligned >1 times 82.33% overall alignment rate Time searching: 00:06:27 Overall time: 00:06:27 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 12 files... [bam_rmdupse_core] 6580789 / 23641766 = 0.2784 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 19:40:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.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 19:40:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:40:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:40:35: 1000000 INFO @ Sun, 21 Jun 2020 19:40:41: 2000000 INFO @ Sun, 21 Jun 2020 19:40:48: 3000000 INFO @ Sun, 21 Jun 2020 19:40:54: 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 19:40:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.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 19:40:58: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:40:58: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:41:01: 5000000 INFO @ Sun, 21 Jun 2020 19:41:06: 1000000 INFO @ Sun, 21 Jun 2020 19:41:08: 6000000 INFO @ Sun, 21 Jun 2020 19:41:13: 2000000 INFO @ Sun, 21 Jun 2020 19:41:15: 7000000 INFO @ Sun, 21 Jun 2020 19:41:20: 3000000 INFO @ Sun, 21 Jun 2020 19:41:22: 8000000 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 19:41:27: 4000000 INFO @ Sun, 21 Jun 2020 19:41:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.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 19:41:28: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:41:28: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:41:30: 9000000 INFO @ Sun, 21 Jun 2020 19:41:34: 5000000 INFO @ Sun, 21 Jun 2020 19:41:36: 1000000 INFO @ Sun, 21 Jun 2020 19:41:37: 10000000 INFO @ Sun, 21 Jun 2020 19:41:41: 6000000 INFO @ Sun, 21 Jun 2020 19:41:43: 2000000 INFO @ Sun, 21 Jun 2020 19:41:45: 11000000 INFO @ Sun, 21 Jun 2020 19:41:48: 7000000 INFO @ Sun, 21 Jun 2020 19:41:51: 3000000 INFO @ Sun, 21 Jun 2020 19:41:52: 12000000 INFO @ Sun, 21 Jun 2020 19:41:55: 8000000 INFO @ Sun, 21 Jun 2020 19:41:58: 4000000 INFO @ Sun, 21 Jun 2020 19:41:59: 13000000 INFO @ Sun, 21 Jun 2020 19:42:02: 9000000 INFO @ Sun, 21 Jun 2020 19:42:05: 5000000 INFO @ Sun, 21 Jun 2020 19:42:07: 14000000 INFO @ Sun, 21 Jun 2020 19:42:09: 10000000 INFO @ Sun, 21 Jun 2020 19:42:13: 6000000 INFO @ Sun, 21 Jun 2020 19:42:15: 15000000 INFO @ Sun, 21 Jun 2020 19:42:17: 11000000 INFO @ Sun, 21 Jun 2020 19:42:20: 7000000 INFO @ Sun, 21 Jun 2020 19:42:22: 16000000 INFO @ Sun, 21 Jun 2020 19:42:24: 12000000 INFO @ Sun, 21 Jun 2020 19:42:28: 8000000 INFO @ Sun, 21 Jun 2020 19:42:30: 17000000 INFO @ Sun, 21 Jun 2020 19:42:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:42:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:42:30: #1 total tags in treatment: 17060977 INFO @ Sun, 21 Jun 2020 19:42:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:42:30: #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 19:42:31: #1 tags after filtering in treatment: 17060892 INFO @ Sun, 21 Jun 2020 19:42:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:42:31: #1 finished! INFO @ Sun, 21 Jun 2020 19:42:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:42:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:42:31: 13000000 INFO @ Sun, 21 Jun 2020 19:42:32: #2 number of paired peaks: 8016 INFO @ Sun, 21 Jun 2020 19:42:32: start model_add_line... INFO @ Sun, 21 Jun 2020 19:42:33: start X-correlation... INFO @ Sun, 21 Jun 2020 19:42:33: end of X-cor INFO @ Sun, 21 Jun 2020 19:42:33: #2 finished! INFO @ Sun, 21 Jun 2020 19:42:33: #2 predicted fragment length is 172 bps INFO @ Sun, 21 Jun 2020 19:42:33: #2 alternative fragment length(s) may be 172 bps INFO @ Sun, 21 Jun 2020 19:42:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05_model.r INFO @ Sun, 21 Jun 2020 19:42:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:42:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:42:35: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:42:38: 14000000 INFO @ Sun, 21 Jun 2020 19:42:42: 10000000 INFO @ Sun, 21 Jun 2020 19:42:46: 15000000 INFO @ Sun, 21 Jun 2020 19:42:50: 11000000 INFO @ Sun, 21 Jun 2020 19:42:53: 16000000 INFO @ Sun, 21 Jun 2020 19:42:57: 12000000 INFO @ Sun, 21 Jun 2020 19:43:00: 17000000 INFO @ Sun, 21 Jun 2020 19:43:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:43:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:43:00: #1 total tags in treatment: 17060977 INFO @ Sun, 21 Jun 2020 19:43:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:43:00: #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 19:43:01: #1 tags after filtering in treatment: 17060892 INFO @ Sun, 21 Jun 2020 19:43:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:43:01: #1 finished! INFO @ Sun, 21 Jun 2020 19:43:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:43:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:43:03: #2 number of paired peaks: 8016 INFO @ Sun, 21 Jun 2020 19:43:03: start model_add_line... INFO @ Sun, 21 Jun 2020 19:43:03: start X-correlation... INFO @ Sun, 21 Jun 2020 19:43:03: end of X-cor INFO @ Sun, 21 Jun 2020 19:43:03: #2 finished! INFO @ Sun, 21 Jun 2020 19:43:03: #2 predicted fragment length is 172 bps INFO @ Sun, 21 Jun 2020 19:43:03: #2 alternative fragment length(s) may be 172 bps INFO @ Sun, 21 Jun 2020 19:43:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10_model.r INFO @ Sun, 21 Jun 2020 19:43:03: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:43:03: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:43:04: 13000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:43:10: 14000000 INFO @ Sun, 21 Jun 2020 19:43:17: 15000000 INFO @ Sun, 21 Jun 2020 19:43:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:43:23: 16000000 INFO @ Sun, 21 Jun 2020 19:43:30: 17000000 INFO @ Sun, 21 Jun 2020 19:43:30: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:43:30: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:43:30: #1 total tags in treatment: 17060977 INFO @ Sun, 21 Jun 2020 19:43:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:43:30: #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 19:43:31: #1 tags after filtering in treatment: 17060892 INFO @ Sun, 21 Jun 2020 19:43:31: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:43:31: #1 finished! INFO @ Sun, 21 Jun 2020 19:43:31: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:43:31: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:43:33: #2 number of paired peaks: 8016 INFO @ Sun, 21 Jun 2020 19:43:33: start model_add_line... INFO @ Sun, 21 Jun 2020 19:43:33: start X-correlation... INFO @ Sun, 21 Jun 2020 19:43:33: end of X-cor INFO @ Sun, 21 Jun 2020 19:43:33: #2 finished! INFO @ Sun, 21 Jun 2020 19:43:33: #2 predicted fragment length is 172 bps INFO @ Sun, 21 Jun 2020 19:43:33: #2 alternative fragment length(s) may be 172 bps INFO @ Sun, 21 Jun 2020 19:43:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20_model.r INFO @ Sun, 21 Jun 2020 19:43:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:43:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:43:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:43:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:43:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.05_summits.bed INFO @ Sun, 21 Jun 2020 19:43:39: Done! pass1 - making usageList (504 chroms): 2 millis pass2 - checking and writing primary data (8820 records, 4 fields): 24 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:43:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:44:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:44:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:44:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.10_summits.bed INFO @ Sun, 21 Jun 2020 19:44:05: Done! pass1 - making usageList (395 chroms): 2 millis pass2 - checking and writing primary data (7845 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:44:16: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:44:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:44:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:44:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX3020546/SRX3020546.20_summits.bed INFO @ Sun, 21 Jun 2020 19:44:34: Done! pass1 - making usageList (215 chroms): 1 millis pass2 - checking and writing primary data (6488 records, 4 fields): 15 millis CompletedMACS2peakCalling