Job ID = 6452723 SRX = SRX027388 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:04:38 prefetch.2.10.7: 1) Downloading 'SRR066831'... 2020-06-21T08:04:38 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:05:37 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:05:37 prefetch.2.10.7: 'SRR066831' is valid 2020-06-21T08:05:37 prefetch.2.10.7: 1) 'SRR066831' was downloaded successfully Read 5662415 spots for SRR066831/SRR066831.sra Written 5662415 spots for SRR066831/SRR066831.sra 2020-06-21T08:06:03 prefetch.2.10.7: 1) Downloading 'SRR066832'... 2020-06-21T08:06:03 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:07:00 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:07:00 prefetch.2.10.7: 'SRR066832' is valid 2020-06-21T08:07:00 prefetch.2.10.7: 1) 'SRR066832' was downloaded successfully Read 6597770 spots for SRR066832/SRR066832.sra Written 6597770 spots for SRR066832/SRR066832.sra 2020-06-21T08:07:32 prefetch.2.10.7: 1) Downloading 'SRR066833'... 2020-06-21T08:07:32 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:08:08 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:08:08 prefetch.2.10.7: 'SRR066833' is valid 2020-06-21T08:08:08 prefetch.2.10.7: 1) 'SRR066833' was downloaded successfully Read 5037444 spots for SRR066833/SRR066833.sra Written 5037444 spots for SRR066833/SRR066833.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: 00:02:44 17297629 reads; of these: 17297629 (100.00%) were unpaired; of these: 2380028 (13.76%) aligned 0 times 13558482 (78.38%) aligned exactly 1 time 1359119 (7.86%) aligned >1 times 86.24% overall alignment rate Time searching: 00:02:44 Overall time: 00:02:44 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_rmdupse_core] 7497178 / 14917601 = 0.5026 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 17:14:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.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 17:14:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:14:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:23: 1000000 INFO @ Sun, 21 Jun 2020 17:14:29: 2000000 INFO @ Sun, 21 Jun 2020 17:14:34: 3000000 INFO @ Sun, 21 Jun 2020 17:14:40: 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 17:14:45: 5000000 INFO @ Sun, 21 Jun 2020 17:14:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.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 17:14:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:14:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:51: 6000000 INFO @ Sun, 21 Jun 2020 17:14:52: 1000000 INFO @ Sun, 21 Jun 2020 17:14:57: 7000000 INFO @ Sun, 21 Jun 2020 17:14:58: 2000000 INFO @ Sun, 21 Jun 2020 17:15:00: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:15:00: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:15:00: #1 total tags in treatment: 7420423 INFO @ Sun, 21 Jun 2020 17:15:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:15:00: #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 17:15:00: #1 tags after filtering in treatment: 7420336 INFO @ Sun, 21 Jun 2020 17:15:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:15:00: #1 finished! INFO @ Sun, 21 Jun 2020 17:15:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:15:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:15:01: #2 number of paired peaks: 1579 INFO @ Sun, 21 Jun 2020 17:15:01: start model_add_line... INFO @ Sun, 21 Jun 2020 17:15:01: start X-correlation... INFO @ Sun, 21 Jun 2020 17:15:01: end of X-cor INFO @ Sun, 21 Jun 2020 17:15:01: #2 finished! INFO @ Sun, 21 Jun 2020 17:15:01: #2 predicted fragment length is 174 bps INFO @ Sun, 21 Jun 2020 17:15:01: #2 alternative fragment length(s) may be 174 bps INFO @ Sun, 21 Jun 2020 17:15:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05_model.r INFO @ Sun, 21 Jun 2020 17:15:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:15:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:15:04: 3000000 INFO @ Sun, 21 Jun 2020 17:15:09: 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 17:15:15: 5000000 INFO @ Sun, 21 Jun 2020 17:15:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.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 17:15:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:15:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:15:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:15:21: 6000000 INFO @ Sun, 21 Jun 2020 17:15:22: 1000000 INFO @ Sun, 21 Jun 2020 17:15:27: 7000000 INFO @ Sun, 21 Jun 2020 17:15:29: 2000000 INFO @ Sun, 21 Jun 2020 17:15:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:15:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:15:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.05_summits.bed INFO @ Sun, 21 Jun 2020 17:15:29: Done! pass1 - making usageList (172 chroms): 1 millis pass2 - checking and writing primary data (4961 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:15:30: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:15:30: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:15:30: #1 total tags in treatment: 7420423 INFO @ Sun, 21 Jun 2020 17:15:30: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:15:30: #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 17:15:30: #1 tags after filtering in treatment: 7420336 INFO @ Sun, 21 Jun 2020 17:15:30: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:15:30: #1 finished! INFO @ Sun, 21 Jun 2020 17:15:30: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:15:30: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:15:31: #2 number of paired peaks: 1579 INFO @ Sun, 21 Jun 2020 17:15:31: start model_add_line... INFO @ Sun, 21 Jun 2020 17:15:31: start X-correlation... INFO @ Sun, 21 Jun 2020 17:15:31: end of X-cor INFO @ Sun, 21 Jun 2020 17:15:31: #2 finished! INFO @ Sun, 21 Jun 2020 17:15:31: #2 predicted fragment length is 174 bps INFO @ Sun, 21 Jun 2020 17:15:31: #2 alternative fragment length(s) may be 174 bps INFO @ Sun, 21 Jun 2020 17:15:31: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10_model.r INFO @ Sun, 21 Jun 2020 17:15:31: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:15:31: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:15:34: 3000000 INFO @ Sun, 21 Jun 2020 17:15:40: 4000000 INFO @ Sun, 21 Jun 2020 17:15:46: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:15:50: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:15:51: 6000000 INFO @ Sun, 21 Jun 2020 17:15:57: 7000000 INFO @ Sun, 21 Jun 2020 17:16:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:16:00: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:16:00: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:16:00: #1 total tags in treatment: 7420423 INFO @ Sun, 21 Jun 2020 17:16:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:16:00: #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 17:16:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:16:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.10_summits.bed INFO @ Sun, 21 Jun 2020 17:16:00: Done! pass1 - making usageList (120 chroms): 2 millis pass2 - checking and writing primary data (2905 records, 4 fields): 8 millis INFO @ Sun, 21 Jun 2020 17:16:00: #1 tags after filtering in treatment: 7420336 INFO @ Sun, 21 Jun 2020 17:16:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:16:00: #1 finished! INFO @ Sun, 21 Jun 2020 17:16:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:16:00: #2 looking for paired plus/minus strand peaks... CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:16:01: #2 number of paired peaks: 1579 INFO @ Sun, 21 Jun 2020 17:16:01: start model_add_line... INFO @ Sun, 21 Jun 2020 17:16:01: start X-correlation... INFO @ Sun, 21 Jun 2020 17:16:01: end of X-cor INFO @ Sun, 21 Jun 2020 17:16:01: #2 finished! INFO @ Sun, 21 Jun 2020 17:16:01: #2 predicted fragment length is 174 bps INFO @ Sun, 21 Jun 2020 17:16:01: #2 alternative fragment length(s) may be 174 bps INFO @ Sun, 21 Jun 2020 17:16:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20_model.r INFO @ Sun, 21 Jun 2020 17:16:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:16:01: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:16:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:16:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:16:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:16:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027388/SRX027388.20_summits.bed INFO @ Sun, 21 Jun 2020 17:16:29: Done! pass1 - making usageList (91 chroms): 2 millis pass2 - checking and writing primary data (1764 records, 4 fields): 7 millis CompletedMACS2peakCalling