Job ID = 6459057 SRX = SRX6386735 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:02:49 prefetch.2.10.7: 1) Downloading 'SRR9624467'... 2020-06-21T13:02:49 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:10:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:10:09 prefetch.2.10.7: 1) 'SRR9624467' was downloaded successfully Read 30447960 spots for SRR9624467/SRR9624467.sra Written 30447960 spots for SRR9624467/SRR9624467.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: 00:05:09 30447960 reads; of these: 30447960 (100.00%) were unpaired; of these: 19226111 (63.14%) aligned 0 times 8277643 (27.19%) aligned exactly 1 time 2944206 (9.67%) aligned >1 times 36.86% overall alignment rate Time searching: 00:05:09 Overall time: 00:05:09 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] 8739093 / 11221849 = 0.7788 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 22:20:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.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 22:20:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:20:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:20:09: 1000000 INFO @ Sun, 21 Jun 2020 22:20:16: 2000000 INFO @ Sun, 21 Jun 2020 22:20:19: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:20:19: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:20:19: #1 total tags in treatment: 2482756 INFO @ Sun, 21 Jun 2020 22:20:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:20:19: #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 22:20:20: #1 tags after filtering in treatment: 2482641 INFO @ Sun, 21 Jun 2020 22:20:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:20:20: #1 finished! INFO @ Sun, 21 Jun 2020 22:20:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:20:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:20:20: #2 number of paired peaks: 3353 INFO @ Sun, 21 Jun 2020 22:20:20: start model_add_line... INFO @ Sun, 21 Jun 2020 22:20:20: start X-correlation... INFO @ Sun, 21 Jun 2020 22:20:20: end of X-cor INFO @ Sun, 21 Jun 2020 22:20:20: #2 finished! INFO @ Sun, 21 Jun 2020 22:20:20: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 22:20:20: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 22:20:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05_model.r INFO @ Sun, 21 Jun 2020 22:20:20: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:20:20: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:20:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:20:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:20:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:20:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.05_summits.bed INFO @ Sun, 21 Jun 2020 22:20:30: Done! pass1 - making usageList (774 chroms): 1 millis pass2 - checking and writing primary data (2471 records, 4 fields): 43 millis CompletedMACS2peakCalling 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 22:20:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.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 22:20:33: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:20:33: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:20:40: 1000000 INFO @ Sun, 21 Jun 2020 22:20:47: 2000000 INFO @ Sun, 21 Jun 2020 22:20:50: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:20:50: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:20:50: #1 total tags in treatment: 2482756 INFO @ Sun, 21 Jun 2020 22:20:50: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:20:50: #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 22:20:51: #1 tags after filtering in treatment: 2482641 INFO @ Sun, 21 Jun 2020 22:20:51: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:20:51: #1 finished! INFO @ Sun, 21 Jun 2020 22:20:51: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:20:51: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:20:51: #2 number of paired peaks: 3353 INFO @ Sun, 21 Jun 2020 22:20:51: start model_add_line... INFO @ Sun, 21 Jun 2020 22:20:51: start X-correlation... INFO @ Sun, 21 Jun 2020 22:20:51: end of X-cor INFO @ Sun, 21 Jun 2020 22:20:51: #2 finished! INFO @ Sun, 21 Jun 2020 22:20:51: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 22:20:51: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 22:20:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10_model.r INFO @ Sun, 21 Jun 2020 22:20:51: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:20:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:20:58: #3 Call peaks for each chromosome... 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 22:21:01: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:21:01: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:21:01: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.10_summits.bed INFO @ Sun, 21 Jun 2020 22:21:01: Done! pass1 - making usageList (652 chroms): 1 millis pass2 - checking and writing primary data (1557 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:21:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.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 22:21:03: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:21:03: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:21:09: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:21:16: 2000000 INFO @ Sun, 21 Jun 2020 22:21:19: #1 tag size is determined as 51 bps INFO @ Sun, 21 Jun 2020 22:21:19: #1 tag size = 51 INFO @ Sun, 21 Jun 2020 22:21:19: #1 total tags in treatment: 2482756 INFO @ Sun, 21 Jun 2020 22:21:19: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:21:19: #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 22:21:20: #1 tags after filtering in treatment: 2482641 INFO @ Sun, 21 Jun 2020 22:21:20: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:21:20: #1 finished! INFO @ Sun, 21 Jun 2020 22:21:20: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:21:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:21:20: #2 number of paired peaks: 3353 INFO @ Sun, 21 Jun 2020 22:21:20: start model_add_line... INFO @ Sun, 21 Jun 2020 22:21:20: start X-correlation... INFO @ Sun, 21 Jun 2020 22:21:20: end of X-cor INFO @ Sun, 21 Jun 2020 22:21:20: #2 finished! INFO @ Sun, 21 Jun 2020 22:21:20: #2 predicted fragment length is 152 bps INFO @ Sun, 21 Jun 2020 22:21:20: #2 alternative fragment length(s) may be 152 bps INFO @ Sun, 21 Jun 2020 22:21:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20_model.r INFO @ Sun, 21 Jun 2020 22:21:20: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:21:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:21:27: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:21:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:21:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:21:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386735/SRX6386735.20_summits.bed INFO @ Sun, 21 Jun 2020 22:21:30: Done! pass1 - making usageList (486 chroms): 1 millis pass2 - checking and writing primary data (852 records, 4 fields): 27 millis CompletedMACS2peakCalling