Job ID = 6458819 SRX = SRX5535391 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:40:44 prefetch.2.10.7: 1) Downloading 'SRR8743319'... 2020-06-21T12:40:44 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:43:18 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:43:18 prefetch.2.10.7: 'SRR8743319' is valid 2020-06-21T12:43:18 prefetch.2.10.7: 1) 'SRR8743319' was downloaded successfully Read 15819007 spots for SRR8743319/SRR8743319.sra Written 15819007 spots for SRR8743319/SRR8743319.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: 00:04:06 15819007 reads; of these: 15819007 (100.00%) were unpaired; of these: 322253 (2.04%) aligned 0 times 11532313 (72.90%) aligned exactly 1 time 3964441 (25.06%) aligned >1 times 97.96% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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 8 files... [bam_rmdupse_core] 4086437 / 15496754 = 0.2637 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 21:51:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.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 21:51:45: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:51:45: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:51:51: 1000000 INFO @ Sun, 21 Jun 2020 21:51:57: 2000000 INFO @ Sun, 21 Jun 2020 21:52:03: 3000000 INFO @ Sun, 21 Jun 2020 21:52:09: 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 21:52:15: 5000000 INFO @ Sun, 21 Jun 2020 21:52:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.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 21:52:15: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:52:15: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:52:21: 6000000 INFO @ Sun, 21 Jun 2020 21:52:22: 1000000 INFO @ Sun, 21 Jun 2020 21:52:28: 7000000 INFO @ Sun, 21 Jun 2020 21:52:29: 2000000 INFO @ Sun, 21 Jun 2020 21:52:34: 8000000 INFO @ Sun, 21 Jun 2020 21:52:35: 3000000 INFO @ Sun, 21 Jun 2020 21:52:41: 9000000 INFO @ Sun, 21 Jun 2020 21:52:42: 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 21:52:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.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 21:52:45: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:52:45: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:52:48: 10000000 INFO @ Sun, 21 Jun 2020 21:52:48: 5000000 INFO @ Sun, 21 Jun 2020 21:52:52: 1000000 INFO @ Sun, 21 Jun 2020 21:52:55: 11000000 INFO @ Sun, 21 Jun 2020 21:52:55: 6000000 INFO @ Sun, 21 Jun 2020 21:52:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:52:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:52:58: #1 total tags in treatment: 11410317 INFO @ Sun, 21 Jun 2020 21:52:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:52:58: #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 21:52:58: #1 tags after filtering in treatment: 11410205 INFO @ Sun, 21 Jun 2020 21:52:58: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:52:58: #1 finished! INFO @ Sun, 21 Jun 2020 21:52:58: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:52:58: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:52:59: 2000000 INFO @ Sun, 21 Jun 2020 21:52:59: #2 number of paired peaks: 1135 INFO @ Sun, 21 Jun 2020 21:52:59: start model_add_line... INFO @ Sun, 21 Jun 2020 21:52:59: start X-correlation... INFO @ Sun, 21 Jun 2020 21:52:59: end of X-cor INFO @ Sun, 21 Jun 2020 21:52:59: #2 finished! INFO @ Sun, 21 Jun 2020 21:52:59: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 21:52:59: #2 alternative fragment length(s) may be 0,127,596 bps INFO @ Sun, 21 Jun 2020 21:52:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05_model.r INFO @ Sun, 21 Jun 2020 21:52:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:52:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:53:02: 7000000 INFO @ Sun, 21 Jun 2020 21:53:05: 3000000 INFO @ Sun, 21 Jun 2020 21:53:08: 8000000 INFO @ Sun, 21 Jun 2020 21:53:12: 4000000 INFO @ Sun, 21 Jun 2020 21:53:15: 9000000 INFO @ Sun, 21 Jun 2020 21:53:19: 5000000 INFO @ Sun, 21 Jun 2020 21:53:22: 10000000 INFO @ Sun, 21 Jun 2020 21:53:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:53:25: 6000000 INFO @ Sun, 21 Jun 2020 21:53:28: 11000000 INFO @ Sun, 21 Jun 2020 21:53:31: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:53:31: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:53:31: #1 total tags in treatment: 11410317 INFO @ Sun, 21 Jun 2020 21:53:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:53:31: #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 21:53:32: #1 tags after filtering in treatment: 11410205 INFO @ Sun, 21 Jun 2020 21:53:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:53:32: #1 finished! INFO @ Sun, 21 Jun 2020 21:53:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:53:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:53:32: 7000000 INFO @ Sun, 21 Jun 2020 21:53:33: #2 number of paired peaks: 1135 INFO @ Sun, 21 Jun 2020 21:53:33: start model_add_line... INFO @ Sun, 21 Jun 2020 21:53:33: start X-correlation... INFO @ Sun, 21 Jun 2020 21:53:33: end of X-cor INFO @ Sun, 21 Jun 2020 21:53:33: #2 finished! INFO @ Sun, 21 Jun 2020 21:53:33: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 21:53:33: #2 alternative fragment length(s) may be 0,127,596 bps INFO @ Sun, 21 Jun 2020 21:53:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10_model.r INFO @ Sun, 21 Jun 2020 21:53:33: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:53:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:53:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:53:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:53:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.05_summits.bed INFO @ Sun, 21 Jun 2020 21:53:34: Done! pass1 - making usageList (431 chroms): 1 millis pass2 - checking and writing primary data (2016 records, 4 fields): 15 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:53:38: 8000000 INFO @ Sun, 21 Jun 2020 21:53:44: 9000000 INFO @ Sun, 21 Jun 2020 21:53:50: 10000000 INFO @ Sun, 21 Jun 2020 21:53:55: 11000000 INFO @ Sun, 21 Jun 2020 21:53:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:53:58: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:53:58: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:53:58: #1 total tags in treatment: 11410317 INFO @ Sun, 21 Jun 2020 21:53:58: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:53:58: #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 21:53:58: #1 tags after filtering in treatment: 11410205 INFO @ Sun, 21 Jun 2020 21:53:58: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:53:58: #1 finished! INFO @ Sun, 21 Jun 2020 21:53:58: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:53:58: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:53:59: #2 number of paired peaks: 1135 INFO @ Sun, 21 Jun 2020 21:53:59: start model_add_line... INFO @ Sun, 21 Jun 2020 21:53:59: start X-correlation... INFO @ Sun, 21 Jun 2020 21:53:59: end of X-cor INFO @ Sun, 21 Jun 2020 21:53:59: #2 finished! INFO @ Sun, 21 Jun 2020 21:53:59: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 21:53:59: #2 alternative fragment length(s) may be 0,127,596 bps INFO @ Sun, 21 Jun 2020 21:53:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20_model.r INFO @ Sun, 21 Jun 2020 21:53:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:53:59: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:54:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:54:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:54:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.10_summits.bed INFO @ Sun, 21 Jun 2020 21:54:08: Done! pass1 - making usageList (304 chroms): 1 millis pass2 - checking and writing primary data (722 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:54:23: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:54:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:54:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:54:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5535391/SRX5535391.20_summits.bed INFO @ Sun, 21 Jun 2020 21:54:34: Done! pass1 - making usageList (104 chroms): 1 millis pass2 - checking and writing primary data (183 records, 4 fields): 3 millis CompletedMACS2peakCalling