Job ID = 6455174 SRX = SRX2804232 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:46:10 prefetch.2.10.7: 1) Downloading 'SRR5534660'... 2020-06-21T09:46:10 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:48:24 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:48:24 prefetch.2.10.7: 1) 'SRR5534660' was downloaded successfully 2020-06-21T09:48:24 prefetch.2.10.7: 'SRR5534660' has 0 unresolved dependencies Read 35966536 spots for SRR5534660/SRR5534660.sra Written 35966536 spots for SRR5534660/SRR5534660.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: 00:08:19 35966536 reads; of these: 35966536 (100.00%) were unpaired; of these: 2291554 (6.37%) aligned 0 times 25724044 (71.52%) aligned exactly 1 time 7950938 (22.11%) aligned >1 times 93.63% overall alignment rate Time searching: 00:08:19 Overall time: 00:08:19 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] 13096268 / 33674982 = 0.3889 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 19:05:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.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 19:05:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:05:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:05:59: 1000000 INFO @ Sun, 21 Jun 2020 19:06:04: 2000000 INFO @ Sun, 21 Jun 2020 19:06:09: 3000000 INFO @ Sun, 21 Jun 2020 19:06:14: 4000000 INFO @ Sun, 21 Jun 2020 19:06:19: 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 19:06:24: 6000000 INFO @ Sun, 21 Jun 2020 19:06:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.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 19:06:24: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:24: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:29: 7000000 INFO @ Sun, 21 Jun 2020 19:06:30: 1000000 INFO @ Sun, 21 Jun 2020 19:06:35: 8000000 INFO @ Sun, 21 Jun 2020 19:06:35: 2000000 INFO @ Sun, 21 Jun 2020 19:06:40: 9000000 INFO @ Sun, 21 Jun 2020 19:06:40: 3000000 INFO @ Sun, 21 Jun 2020 19:06:46: 4000000 INFO @ Sun, 21 Jun 2020 19:06:46: 10000000 INFO @ Sun, 21 Jun 2020 19:06:51: 5000000 INFO @ Sun, 21 Jun 2020 19:06:51: 11000000 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 19:06:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.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 19:06:54: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:06:54: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:06:56: 6000000 INFO @ Sun, 21 Jun 2020 19:06:57: 12000000 INFO @ Sun, 21 Jun 2020 19:07:00: 1000000 INFO @ Sun, 21 Jun 2020 19:07:02: 7000000 INFO @ Sun, 21 Jun 2020 19:07:03: 13000000 INFO @ Sun, 21 Jun 2020 19:07:06: 2000000 INFO @ Sun, 21 Jun 2020 19:07:08: 8000000 INFO @ Sun, 21 Jun 2020 19:07:09: 14000000 INFO @ Sun, 21 Jun 2020 19:07:12: 3000000 INFO @ Sun, 21 Jun 2020 19:07:14: 9000000 INFO @ Sun, 21 Jun 2020 19:07:14: 15000000 INFO @ Sun, 21 Jun 2020 19:07:18: 4000000 INFO @ Sun, 21 Jun 2020 19:07:20: 10000000 INFO @ Sun, 21 Jun 2020 19:07:20: 16000000 INFO @ Sun, 21 Jun 2020 19:07:24: 5000000 INFO @ Sun, 21 Jun 2020 19:07:26: 11000000 INFO @ Sun, 21 Jun 2020 19:07:27: 17000000 INFO @ Sun, 21 Jun 2020 19:07:29: 6000000 INFO @ Sun, 21 Jun 2020 19:07:32: 12000000 INFO @ Sun, 21 Jun 2020 19:07:33: 18000000 INFO @ Sun, 21 Jun 2020 19:07:35: 7000000 INFO @ Sun, 21 Jun 2020 19:07:38: 13000000 INFO @ Sun, 21 Jun 2020 19:07:39: 19000000 INFO @ Sun, 21 Jun 2020 19:07:41: 8000000 INFO @ Sun, 21 Jun 2020 19:07:43: 14000000 INFO @ Sun, 21 Jun 2020 19:07:45: 20000000 INFO @ Sun, 21 Jun 2020 19:07:47: 9000000 INFO @ Sun, 21 Jun 2020 19:07:49: 15000000 INFO @ Sun, 21 Jun 2020 19:07:50: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:07:50: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:07:50: #1 total tags in treatment: 20578714 INFO @ Sun, 21 Jun 2020 19:07:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:07:50: #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 19:07:51: #1 tags after filtering in treatment: 20578712 INFO @ Sun, 21 Jun 2020 19:07:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:07:51: #1 finished! INFO @ Sun, 21 Jun 2020 19:07:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:07:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:07:53: #2 number of paired peaks: 5588 INFO @ Sun, 21 Jun 2020 19:07:53: start model_add_line... INFO @ Sun, 21 Jun 2020 19:07:53: start X-correlation... INFO @ Sun, 21 Jun 2020 19:07:53: end of X-cor INFO @ Sun, 21 Jun 2020 19:07:53: #2 finished! INFO @ Sun, 21 Jun 2020 19:07:53: #2 predicted fragment length is 196 bps INFO @ Sun, 21 Jun 2020 19:07:53: #2 alternative fragment length(s) may be 196 bps INFO @ Sun, 21 Jun 2020 19:07:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05_model.r INFO @ Sun, 21 Jun 2020 19:07:53: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:07:53: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:07:54: 10000000 INFO @ Sun, 21 Jun 2020 19:07:55: 16000000 INFO @ Sun, 21 Jun 2020 19:07:59: 11000000 INFO @ Sun, 21 Jun 2020 19:08:02: 17000000 INFO @ Sun, 21 Jun 2020 19:08:05: 12000000 INFO @ Sun, 21 Jun 2020 19:08:08: 18000000 INFO @ Sun, 21 Jun 2020 19:08:11: 13000000 INFO @ Sun, 21 Jun 2020 19:08:14: 19000000 INFO @ Sun, 21 Jun 2020 19:08:17: 14000000 INFO @ Sun, 21 Jun 2020 19:08:20: 20000000 INFO @ Sun, 21 Jun 2020 19:08:22: 15000000 INFO @ Sun, 21 Jun 2020 19:08:24: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:08:24: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:08:24: #1 total tags in treatment: 20578714 INFO @ Sun, 21 Jun 2020 19:08:24: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:08:24: #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 19:08:25: #1 tags after filtering in treatment: 20578712 INFO @ Sun, 21 Jun 2020 19:08:25: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:08:25: #1 finished! INFO @ Sun, 21 Jun 2020 19:08:25: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:08:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:08:27: #2 number of paired peaks: 5588 INFO @ Sun, 21 Jun 2020 19:08:27: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:27: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:27: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:27: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:27: #2 predicted fragment length is 196 bps INFO @ Sun, 21 Jun 2020 19:08:27: #2 alternative fragment length(s) may be 196 bps INFO @ Sun, 21 Jun 2020 19:08:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10_model.r INFO @ Sun, 21 Jun 2020 19:08:27: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:08:28: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:08:34: 17000000 INFO @ Sun, 21 Jun 2020 19:08:40: 18000000 INFO @ Sun, 21 Jun 2020 19:08:45: 19000000 INFO @ Sun, 21 Jun 2020 19:08:51: 20000000 INFO @ Sun, 21 Jun 2020 19:08:55: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 19:08:55: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 19:08:55: #1 total tags in treatment: 20578714 INFO @ Sun, 21 Jun 2020 19:08:55: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:08:55: #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 19:08:56: #1 tags after filtering in treatment: 20578712 INFO @ Sun, 21 Jun 2020 19:08:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:08:56: #1 finished! INFO @ Sun, 21 Jun 2020 19:08:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:08:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:08:58: #2 number of paired peaks: 5588 INFO @ Sun, 21 Jun 2020 19:08:58: start model_add_line... INFO @ Sun, 21 Jun 2020 19:08:58: start X-correlation... INFO @ Sun, 21 Jun 2020 19:08:58: end of X-cor INFO @ Sun, 21 Jun 2020 19:08:58: #2 finished! INFO @ Sun, 21 Jun 2020 19:08:58: #2 predicted fragment length is 196 bps INFO @ Sun, 21 Jun 2020 19:08:58: #2 alternative fragment length(s) may be 196 bps INFO @ Sun, 21 Jun 2020 19:08:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20_model.r INFO @ Sun, 21 Jun 2020 19:08:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:08:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:09:03: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:09:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:09:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:09:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.05_summits.bed INFO @ Sun, 21 Jun 2020 19:09:24: Done! pass1 - making usageList (458 chroms): 3 millis pass2 - checking and writing primary data (8802 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:09:36: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:09:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:09:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:09:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.10_summits.bed INFO @ Sun, 21 Jun 2020 19:09:57: Done! pass1 - making usageList (305 chroms): 2 millis pass2 - checking and writing primary data (7200 records, 4 fields): 26 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:10:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:10:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:10:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:10:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2804232/SRX2804232.20_summits.bed INFO @ Sun, 21 Jun 2020 19:10:26: Done! pass1 - making usageList (177 chroms): 2 millis pass2 - checking and writing primary data (5478 records, 4 fields): 17 millis CompletedMACS2peakCalling