Job ID = 6459455 SRX = SRX681795 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T13:15:31 prefetch.2.10.7: 1) Downloading 'SRR1552264'... 2020-06-21T13:15:31 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T13:16:33 prefetch.2.10.7: HTTPS download succeed 2020-06-21T13:16:33 prefetch.2.10.7: 'SRR1552264' is valid 2020-06-21T13:16:33 prefetch.2.10.7: 1) 'SRR1552264' was downloaded successfully Read 3854365 spots for SRR1552264/SRR1552264.sra Written 3854365 spots for SRR1552264/SRR1552264.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: 00:00:50 3854365 reads; of these: 3854365 (100.00%) were unpaired; of these: 419730 (10.89%) aligned 0 times 2775184 (72.00%) aligned exactly 1 time 659451 (17.11%) aligned >1 times 89.11% overall alignment rate Time searching: 00:00:50 Overall time: 00:00:50 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] 1591135 / 3434635 = 0.4633 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 22:18:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.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 22:18:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:18:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:18:55: 1000000 INFO @ Sun, 21 Jun 2020 22:19:01: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 22:19:01: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 22:19:01: #1 total tags in treatment: 1843500 INFO @ Sun, 21 Jun 2020 22:19:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:19:01: #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 22:19:01: #1 tags after filtering in treatment: 1843398 INFO @ Sun, 21 Jun 2020 22:19:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:19:01: #1 finished! INFO @ Sun, 21 Jun 2020 22:19:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:19:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:19:02: #2 number of paired peaks: 1235 INFO @ Sun, 21 Jun 2020 22:19:02: start model_add_line... INFO @ Sun, 21 Jun 2020 22:19:02: start X-correlation... INFO @ Sun, 21 Jun 2020 22:19:02: end of X-cor INFO @ Sun, 21 Jun 2020 22:19:02: #2 finished! INFO @ Sun, 21 Jun 2020 22:19:02: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:19:02: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:19:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05_model.r INFO @ Sun, 21 Jun 2020 22:19:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:19:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:19:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:19:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:19:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:19:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.05_summits.bed INFO @ Sun, 21 Jun 2020 22:19:09: Done! pass1 - making usageList (412 chroms): 1 millis pass2 - checking and writing primary data (1353 records, 4 fields): 13 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 22:19:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.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 22:19:17: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:19:17: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:19:25: 1000000 INFO @ Sun, 21 Jun 2020 22:19:31: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 22:19:31: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 22:19:31: #1 total tags in treatment: 1843500 INFO @ Sun, 21 Jun 2020 22:19:31: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:19:31: #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 22:19:32: #1 tags after filtering in treatment: 1843398 INFO @ Sun, 21 Jun 2020 22:19:32: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:19:32: #1 finished! INFO @ Sun, 21 Jun 2020 22:19:32: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:19:32: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:19:32: #2 number of paired peaks: 1235 INFO @ Sun, 21 Jun 2020 22:19:32: start model_add_line... INFO @ Sun, 21 Jun 2020 22:19:32: start X-correlation... INFO @ Sun, 21 Jun 2020 22:19:32: end of X-cor INFO @ Sun, 21 Jun 2020 22:19:32: #2 finished! INFO @ Sun, 21 Jun 2020 22:19:32: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:19:32: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:19:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10_model.r INFO @ Sun, 21 Jun 2020 22:19:32: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:19:32: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:19:37: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:19:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:19:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:19:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.10_summits.bed INFO @ Sun, 21 Jun 2020 22:19:39: Done! pass1 - making usageList (227 chroms): 1 millis pass2 - checking and writing primary data (556 records, 4 fields): 8 millis CompletedMACS2peakCalling 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 22:19:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.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 22:19:47: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:19:47: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:19:54: 1000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:20:00: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 22:20:00: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 22:20:00: #1 total tags in treatment: 1843500 INFO @ Sun, 21 Jun 2020 22:20:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:20:00: #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 22:20:00: #1 tags after filtering in treatment: 1843398 INFO @ Sun, 21 Jun 2020 22:20:00: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:20:00: #1 finished! INFO @ Sun, 21 Jun 2020 22:20:00: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:20:00: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:20:01: #2 number of paired peaks: 1235 INFO @ Sun, 21 Jun 2020 22:20:01: start model_add_line... INFO @ Sun, 21 Jun 2020 22:20:01: start X-correlation... INFO @ Sun, 21 Jun 2020 22:20:01: end of X-cor INFO @ Sun, 21 Jun 2020 22:20:01: #2 finished! INFO @ Sun, 21 Jun 2020 22:20:01: #2 predicted fragment length is 99 bps INFO @ Sun, 21 Jun 2020 22:20:01: #2 alternative fragment length(s) may be 99 bps INFO @ Sun, 21 Jun 2020 22:20:01: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20_model.r INFO @ Sun, 21 Jun 2020 22:20:01: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:20:01: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:20:06: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:20:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:20:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:20:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX681795/SRX681795.20_summits.bed INFO @ Sun, 21 Jun 2020 22:20:08: Done! pass1 - making usageList (76 chroms): 1 millis pass2 - checking and writing primary data (232 records, 4 fields): 3 millis CompletedMACS2peakCalling