Job ID = 6458275 SRX = SRX5011036 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:16:37 prefetch.2.10.7: 1) Downloading 'SRR8191485'... 2020-06-21T12:16:37 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:19:20 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:19:20 prefetch.2.10.7: 1) 'SRR8191485' was downloaded successfully 2020-06-21T12:19:20 prefetch.2.10.7: 'SRR8191485' has 0 unresolved dependencies Read 33136444 spots for SRR8191485/SRR8191485.sra Written 33136444 spots for SRR8191485/SRR8191485.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: 00:08:11 33136444 reads; of these: 33136444 (100.00%) were unpaired; of these: 1822896 (5.50%) aligned 0 times 24775290 (74.77%) aligned exactly 1 time 6538258 (19.73%) aligned >1 times 94.50% overall alignment rate Time searching: 00:08:11 Overall time: 00:08:11 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] 12057586 / 31313548 = 0.3851 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 21:34:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.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 21:34:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:11: 1000000 INFO @ Sun, 21 Jun 2020 21:34:16: 2000000 INFO @ Sun, 21 Jun 2020 21:34:20: 3000000 INFO @ Sun, 21 Jun 2020 21:34:25: 4000000 INFO @ Sun, 21 Jun 2020 21:34:30: 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 21:34:35: 6000000 INFO @ Sun, 21 Jun 2020 21:34:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.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 21:34:36: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:34:36: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:34:40: 7000000 INFO @ Sun, 21 Jun 2020 21:34:41: 1000000 INFO @ Sun, 21 Jun 2020 21:34:45: 8000000 INFO @ Sun, 21 Jun 2020 21:34:46: 2000000 INFO @ Sun, 21 Jun 2020 21:34:49: 9000000 INFO @ Sun, 21 Jun 2020 21:34:51: 3000000 INFO @ Sun, 21 Jun 2020 21:34:54: 10000000 INFO @ Sun, 21 Jun 2020 21:34:56: 4000000 INFO @ Sun, 21 Jun 2020 21:34:59: 11000000 INFO @ Sun, 21 Jun 2020 21:35:00: 5000000 BedGraph に変換中... INFO @ Sun, 21 Jun 2020 21:35:04: 12000000 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 21:35:05: 6000000 INFO @ Sun, 21 Jun 2020 21:35:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.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 21:35:06: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:35:06: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:35:09: 13000000 INFO @ Sun, 21 Jun 2020 21:35:10: 7000000 INFO @ Sun, 21 Jun 2020 21:35:11: 1000000 INFO @ Sun, 21 Jun 2020 21:35:14: 14000000 INFO @ Sun, 21 Jun 2020 21:35:15: 8000000 INFO @ Sun, 21 Jun 2020 21:35:16: 2000000 INFO @ Sun, 21 Jun 2020 21:35:19: 15000000 INFO @ Sun, 21 Jun 2020 21:35:20: 9000000 INFO @ Sun, 21 Jun 2020 21:35:21: 3000000 INFO @ Sun, 21 Jun 2020 21:35:24: 16000000 INFO @ Sun, 21 Jun 2020 21:35:25: 10000000 INFO @ Sun, 21 Jun 2020 21:35:26: 4000000 INFO @ Sun, 21 Jun 2020 21:35:30: 17000000 INFO @ Sun, 21 Jun 2020 21:35:30: 11000000 INFO @ Sun, 21 Jun 2020 21:35:31: 5000000 INFO @ Sun, 21 Jun 2020 21:35:34: 12000000 INFO @ Sun, 21 Jun 2020 21:35:34: 18000000 INFO @ Sun, 21 Jun 2020 21:35:36: 6000000 INFO @ Sun, 21 Jun 2020 21:35:39: 13000000 INFO @ Sun, 21 Jun 2020 21:35:40: 19000000 INFO @ Sun, 21 Jun 2020 21:35:41: 7000000 INFO @ Sun, 21 Jun 2020 21:35:41: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:35:41: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:35:41: #1 total tags in treatment: 19255962 INFO @ Sun, 21 Jun 2020 21:35:41: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:35:41: #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 21:35:42: #1 tags after filtering in treatment: 19255898 INFO @ Sun, 21 Jun 2020 21:35:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:35:42: #1 finished! INFO @ Sun, 21 Jun 2020 21:35:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:35:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:35:43: #2 number of paired peaks: 3901 INFO @ Sun, 21 Jun 2020 21:35:43: start model_add_line... INFO @ Sun, 21 Jun 2020 21:35:43: start X-correlation... INFO @ Sun, 21 Jun 2020 21:35:43: end of X-cor INFO @ Sun, 21 Jun 2020 21:35:43: #2 finished! INFO @ Sun, 21 Jun 2020 21:35:43: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:35:43: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:35:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05_model.r INFO @ Sun, 21 Jun 2020 21:35:43: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:35:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:35:44: 14000000 INFO @ Sun, 21 Jun 2020 21:35:46: 8000000 INFO @ Sun, 21 Jun 2020 21:35:49: 15000000 INFO @ Sun, 21 Jun 2020 21:35:50: 9000000 INFO @ Sun, 21 Jun 2020 21:35:54: 16000000 INFO @ Sun, 21 Jun 2020 21:35:55: 10000000 INFO @ Sun, 21 Jun 2020 21:35:59: 17000000 INFO @ Sun, 21 Jun 2020 21:36:00: 11000000 INFO @ Sun, 21 Jun 2020 21:36:04: 18000000 INFO @ Sun, 21 Jun 2020 21:36:05: 12000000 INFO @ Sun, 21 Jun 2020 21:36:09: 19000000 INFO @ Sun, 21 Jun 2020 21:36:10: 13000000 INFO @ Sun, 21 Jun 2020 21:36:10: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:36:10: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:36:10: #1 total tags in treatment: 19255962 INFO @ Sun, 21 Jun 2020 21:36:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:36:10: #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 21:36:11: #1 tags after filtering in treatment: 19255898 INFO @ Sun, 21 Jun 2020 21:36:11: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:36:11: #1 finished! INFO @ Sun, 21 Jun 2020 21:36:11: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:36:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:36:13: #2 number of paired peaks: 3901 INFO @ Sun, 21 Jun 2020 21:36:13: start model_add_line... INFO @ Sun, 21 Jun 2020 21:36:13: start X-correlation... INFO @ Sun, 21 Jun 2020 21:36:13: end of X-cor INFO @ Sun, 21 Jun 2020 21:36:13: #2 finished! INFO @ Sun, 21 Jun 2020 21:36:13: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:36:13: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:36:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10_model.r INFO @ Sun, 21 Jun 2020 21:36:13: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:36:13: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:36:15: 14000000 INFO @ Sun, 21 Jun 2020 21:36:19: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:36:24: 16000000 INFO @ Sun, 21 Jun 2020 21:36:29: 17000000 INFO @ Sun, 21 Jun 2020 21:36:32: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:36:34: 18000000 INFO @ Sun, 21 Jun 2020 21:36:39: 19000000 INFO @ Sun, 21 Jun 2020 21:36:40: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:36:40: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:36:40: #1 total tags in treatment: 19255962 INFO @ Sun, 21 Jun 2020 21:36:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:36:40: #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 21:36:40: #1 tags after filtering in treatment: 19255898 INFO @ Sun, 21 Jun 2020 21:36:40: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:36:40: #1 finished! INFO @ Sun, 21 Jun 2020 21:36:40: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:36:40: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:36:42: #2 number of paired peaks: 3901 INFO @ Sun, 21 Jun 2020 21:36:42: start model_add_line... INFO @ Sun, 21 Jun 2020 21:36:42: start X-correlation... INFO @ Sun, 21 Jun 2020 21:36:42: end of X-cor INFO @ Sun, 21 Jun 2020 21:36:42: #2 finished! INFO @ Sun, 21 Jun 2020 21:36:42: #2 predicted fragment length is 211 bps INFO @ Sun, 21 Jun 2020 21:36:42: #2 alternative fragment length(s) may be 211 bps INFO @ Sun, 21 Jun 2020 21:36:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20_model.r INFO @ Sun, 21 Jun 2020 21:36:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:36:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:36:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:36:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:36:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.05_summits.bed INFO @ Sun, 21 Jun 2020 21:36:54: Done! pass1 - making usageList (609 chroms): 3 millis pass2 - checking and writing primary data (15416 records, 4 fields): 31 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:37:03: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:37:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:37:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:37:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.10_summits.bed INFO @ Sun, 21 Jun 2020 21:37:24: Done! pass1 - making usageList (519 chroms): 3 millis pass2 - checking and writing primary data (12590 records, 4 fields): 25 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:37:32: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:37:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:37:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:37:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011036/SRX5011036.20_summits.bed INFO @ Sun, 21 Jun 2020 21:37:53: Done! pass1 - making usageList (400 chroms): 2 millis pass2 - checking and writing primary data (8640 records, 4 fields): 20 millis CompletedMACS2peakCalling