Job ID = 6452734 SRX = SRX027827 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:43:21 prefetch.2.10.7: 1) Downloading 'SRR067910'... 2020-06-21T07:43:21 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:15:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:15:09 prefetch.2.10.7: 1) 'SRR067910' was downloaded successfully Read 11712269 spots for SRR067910/SRR067910.sra Written 11712269 spots for SRR067910/SRR067910.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: 00:02:07 11712269 reads; of these: 11712269 (100.00%) were unpaired; of these: 3618676 (30.90%) aligned 0 times 5708605 (48.74%) aligned exactly 1 time 2384988 (20.36%) aligned >1 times 69.10% overall alignment rate Time searching: 00:02:07 Overall time: 00:02:07 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] 2043059 / 8093593 = 0.2524 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 17:20:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.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 17:20:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:20:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:20:17: 1000000 INFO @ Sun, 21 Jun 2020 17:20:21: 2000000 INFO @ Sun, 21 Jun 2020 17:20:26: 3000000 INFO @ Sun, 21 Jun 2020 17:20:30: 4000000 INFO @ Sun, 21 Jun 2020 17:20:35: 5000000 INFO @ Sun, 21 Jun 2020 17:20:40: 6000000 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 17:20:40: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:20:40: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:20:40: #1 total tags in treatment: 6050534 INFO @ Sun, 21 Jun 2020 17:20:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:20:40: #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 17:20:41: #1 tags after filtering in treatment: 6050402 INFO @ Sun, 21 Jun 2020 17:20:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:20:41: #1 finished! INFO @ Sun, 21 Jun 2020 17:20:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:20:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:20:41: #2 number of paired peaks: 2889 INFO @ Sun, 21 Jun 2020 17:20:41: start model_add_line... INFO @ Sun, 21 Jun 2020 17:20:41: start X-correlation... INFO @ Sun, 21 Jun 2020 17:20:41: end of X-cor INFO @ Sun, 21 Jun 2020 17:20:41: #2 finished! INFO @ Sun, 21 Jun 2020 17:20:41: #2 predicted fragment length is 79 bps INFO @ Sun, 21 Jun 2020 17:20:41: #2 alternative fragment length(s) may be 79 bps INFO @ Sun, 21 Jun 2020 17:20:41: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05_model.r INFO @ Sun, 21 Jun 2020 17:20:41: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:20:41: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:20:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.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 17:20:42: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:20:42: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:20:46: 1000000 INFO @ Sun, 21 Jun 2020 17:20:51: 2000000 INFO @ Sun, 21 Jun 2020 17:20:56: 3000000 INFO @ Sun, 21 Jun 2020 17:20:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:21:00: 4000000 INFO @ Sun, 21 Jun 2020 17:21:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:21:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:21:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.05_summits.bed INFO @ Sun, 21 Jun 2020 17:21:03: Done! pass1 - making usageList (584 chroms): 2 millis pass2 - checking and writing primary data (4513 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:21:05: 5000000 INFO @ Sun, 21 Jun 2020 17:21:10: 6000000 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 17:21:10: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:21:10: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:21:10: #1 total tags in treatment: 6050534 INFO @ Sun, 21 Jun 2020 17:21:10: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:21:10: #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 17:21:10: #1 tags after filtering in treatment: 6050402 INFO @ Sun, 21 Jun 2020 17:21:10: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:21:10: #1 finished! INFO @ Sun, 21 Jun 2020 17:21:10: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:21:10: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:21:11: #2 number of paired peaks: 2889 INFO @ Sun, 21 Jun 2020 17:21:11: start model_add_line... INFO @ Sun, 21 Jun 2020 17:21:11: start X-correlation... INFO @ Sun, 21 Jun 2020 17:21:11: end of X-cor INFO @ Sun, 21 Jun 2020 17:21:11: #2 finished! INFO @ Sun, 21 Jun 2020 17:21:11: #2 predicted fragment length is 79 bps INFO @ Sun, 21 Jun 2020 17:21:11: #2 alternative fragment length(s) may be 79 bps INFO @ Sun, 21 Jun 2020 17:21:11: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10_model.r INFO @ Sun, 21 Jun 2020 17:21:11: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:21:11: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:21:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.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 17:21:12: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:21:12: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:21:17: 1000000 INFO @ Sun, 21 Jun 2020 17:21:21: 2000000 INFO @ Sun, 21 Jun 2020 17:21:26: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:21:26: 3000000 INFO @ Sun, 21 Jun 2020 17:21:31: 4000000 INFO @ Sun, 21 Jun 2020 17:21:33: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:21:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:21:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.10_summits.bed INFO @ Sun, 21 Jun 2020 17:21:33: Done! pass1 - making usageList (451 chroms): 1 millis pass2 - checking and writing primary data (2497 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:21:36: 5000000 INFO @ Sun, 21 Jun 2020 17:21:41: 6000000 INFO @ Sun, 21 Jun 2020 17:21:41: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:21:41: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:21:41: #1 total tags in treatment: 6050534 INFO @ Sun, 21 Jun 2020 17:21:41: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:21:41: #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 17:21:41: #1 tags after filtering in treatment: 6050402 INFO @ Sun, 21 Jun 2020 17:21:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:21:41: #1 finished! INFO @ Sun, 21 Jun 2020 17:21:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:21:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:21:42: #2 number of paired peaks: 2889 INFO @ Sun, 21 Jun 2020 17:21:42: start model_add_line... INFO @ Sun, 21 Jun 2020 17:21:42: start X-correlation... INFO @ Sun, 21 Jun 2020 17:21:42: end of X-cor INFO @ Sun, 21 Jun 2020 17:21:42: #2 finished! INFO @ Sun, 21 Jun 2020 17:21:42: #2 predicted fragment length is 79 bps INFO @ Sun, 21 Jun 2020 17:21:42: #2 alternative fragment length(s) may be 79 bps INFO @ Sun, 21 Jun 2020 17:21:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20_model.r INFO @ Sun, 21 Jun 2020 17:21:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:21:42: #3 Pre-compute pvalue-qvalue table... 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 17:21:56: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:22:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:22:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:22:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX027827/SRX027827.20_summits.bed INFO @ Sun, 21 Jun 2020 17:22:04: Done! pass1 - making usageList (180 chroms): 1 millis pass2 - checking and writing primary data (1137 records, 4 fields): 8 millis CompletedMACS2peakCalling