Job ID = 6458333 SRX = SRX5011079 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:38:00 prefetch.2.10.7: 1) Downloading 'SRR8191528'... 2020-06-21T12:38:00 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:44:14 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:44:14 prefetch.2.10.7: 1) 'SRR8191528' was downloaded successfully Read 36697607 spots for SRR8191528/SRR8191528.sra Written 36697607 spots for SRR8191528/SRR8191528.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: 00:07:40 36697607 reads; of these: 36697607 (100.00%) were unpaired; of these: 12878697 (35.09%) aligned 0 times 18254368 (49.74%) aligned exactly 1 time 5564542 (15.16%) aligned >1 times 64.91% overall alignment rate Time searching: 00:07:40 Overall time: 00:07:40 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 12 files... [bam_rmdupse_core] 15434573 / 23818910 = 0.6480 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 21:59:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.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 21:59:11: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:59:11: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:59:17: 1000000 INFO @ Sun, 21 Jun 2020 21:59:22: 2000000 INFO @ Sun, 21 Jun 2020 21:59:28: 3000000 INFO @ Sun, 21 Jun 2020 21:59:34: 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 21:59:40: 5000000 INFO @ Sun, 21 Jun 2020 21:59:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.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 21:59:41: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:59:41: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:59:46: 6000000 INFO @ Sun, 21 Jun 2020 21:59:47: 1000000 INFO @ Sun, 21 Jun 2020 21:59:52: 7000000 INFO @ Sun, 21 Jun 2020 21:59:53: 2000000 INFO @ Sun, 21 Jun 2020 21:59:58: 8000000 INFO @ Sun, 21 Jun 2020 22:00:00: 3000000 INFO @ Sun, 21 Jun 2020 22:00:01: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:00:01: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:00:01: #1 total tags in treatment: 8384337 INFO @ Sun, 21 Jun 2020 22:00:01: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:00:01: #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 22:00:01: #1 tags after filtering in treatment: 8384252 INFO @ Sun, 21 Jun 2020 22:00:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:00:01: #1 finished! INFO @ Sun, 21 Jun 2020 22:00:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:00:01: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:00:02: #2 number of paired peaks: 3678 INFO @ Sun, 21 Jun 2020 22:00:02: start model_add_line... INFO @ Sun, 21 Jun 2020 22:00:02: start X-correlation... INFO @ Sun, 21 Jun 2020 22:00:02: end of X-cor INFO @ Sun, 21 Jun 2020 22:00:02: #2 finished! INFO @ Sun, 21 Jun 2020 22:00:02: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 22:00:02: #2 alternative fragment length(s) may be 153 bps INFO @ Sun, 21 Jun 2020 22:00:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05_model.r INFO @ Sun, 21 Jun 2020 22:00:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:00:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:00:06: 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 22:00:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.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 22:00:11: #1 read tag files... INFO @ Sun, 21 Jun 2020 22:00:11: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 22:00:13: 5000000 INFO @ Sun, 21 Jun 2020 22:00:18: 1000000 INFO @ Sun, 21 Jun 2020 22:00:19: 6000000 INFO @ Sun, 21 Jun 2020 22:00:25: 2000000 INFO @ Sun, 21 Jun 2020 22:00:25: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:00:27: 7000000 INFO @ Sun, 21 Jun 2020 22:00:31: 3000000 INFO @ Sun, 21 Jun 2020 22:00:33: 8000000 INFO @ Sun, 21 Jun 2020 22:00:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05_peaks.xls INFO @ Sun, 21 Jun 2020 22:00:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:00:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.05_summits.bed INFO @ Sun, 21 Jun 2020 22:00:35: Done! pass1 - making usageList (781 chroms): 2 millis pass2 - checking and writing primary data (8113 records, 4 fields): 53 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 22:00:36: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:00:36: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:00:36: #1 total tags in treatment: 8384337 INFO @ Sun, 21 Jun 2020 22:00:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:00:36: #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 22:00:37: #1 tags after filtering in treatment: 8384252 INFO @ Sun, 21 Jun 2020 22:00:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:00:37: #1 finished! INFO @ Sun, 21 Jun 2020 22:00:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:00:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:00:38: #2 number of paired peaks: 3678 INFO @ Sun, 21 Jun 2020 22:00:38: start model_add_line... INFO @ Sun, 21 Jun 2020 22:00:38: 4000000 INFO @ Sun, 21 Jun 2020 22:00:38: start X-correlation... INFO @ Sun, 21 Jun 2020 22:00:38: end of X-cor INFO @ Sun, 21 Jun 2020 22:00:38: #2 finished! INFO @ Sun, 21 Jun 2020 22:00:38: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 22:00:38: #2 alternative fragment length(s) may be 153 bps INFO @ Sun, 21 Jun 2020 22:00:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10_model.r INFO @ Sun, 21 Jun 2020 22:00:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:00:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:00:44: 5000000 INFO @ Sun, 21 Jun 2020 22:00:51: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 22:00:58: 7000000 INFO @ Sun, 21 Jun 2020 22:01:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:01:04: 8000000 INFO @ Sun, 21 Jun 2020 22:01:07: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 22:01:07: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 22:01:07: #1 total tags in treatment: 8384337 INFO @ Sun, 21 Jun 2020 22:01:07: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 22:01:07: #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 22:01:08: #1 tags after filtering in treatment: 8384252 INFO @ Sun, 21 Jun 2020 22:01:08: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 22:01:08: #1 finished! INFO @ Sun, 21 Jun 2020 22:01:08: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 22:01:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 22:01:09: #2 number of paired peaks: 3678 INFO @ Sun, 21 Jun 2020 22:01:09: start model_add_line... INFO @ Sun, 21 Jun 2020 22:01:09: start X-correlation... INFO @ Sun, 21 Jun 2020 22:01:09: end of X-cor INFO @ Sun, 21 Jun 2020 22:01:09: #2 finished! INFO @ Sun, 21 Jun 2020 22:01:09: #2 predicted fragment length is 153 bps INFO @ Sun, 21 Jun 2020 22:01:09: #2 alternative fragment length(s) may be 153 bps INFO @ Sun, 21 Jun 2020 22:01:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20_model.r INFO @ Sun, 21 Jun 2020 22:01:09: #3 Call peaks... INFO @ Sun, 21 Jun 2020 22:01:09: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 22:01:10: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10_peaks.xls INFO @ Sun, 21 Jun 2020 22:01:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:01:11: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.10_summits.bed INFO @ Sun, 21 Jun 2020 22:01:11: Done! pass1 - making usageList (664 chroms): 2 millis pass2 - checking and writing primary data (5171 records, 4 fields): 43 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 22:01:31: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 22:01:41: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20_peaks.xls INFO @ Sun, 21 Jun 2020 22:01:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 22:01:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5011079/SRX5011079.20_summits.bed INFO @ Sun, 21 Jun 2020 22:01:41: Done! pass1 - making usageList (505 chroms): 2 millis pass2 - checking and writing primary data (2706 records, 4 fields): 30 millis CompletedMACS2peakCalling