Job ID = 6457531 SRX = SRX4669023 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T11:44:18 prefetch.2.10.7: 1) Downloading 'SRR7817548'... 2020-06-21T11:44:18 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T11:46:57 prefetch.2.10.7: HTTPS download succeed 2020-06-21T11:46:57 prefetch.2.10.7: 'SRR7817548' is valid 2020-06-21T11:46:57 prefetch.2.10.7: 1) 'SRR7817548' was downloaded successfully 2020-06-21T11:46:57 prefetch.2.10.7: 'SRR7817548' has 0 unresolved dependencies Read 24654445 spots for SRR7817548/SRR7817548.sra Written 24654445 spots for SRR7817548/SRR7817548.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: 00:06:09 24654445 reads; of these: 24654445 (100.00%) were unpaired; of these: 2541157 (10.31%) aligned 0 times 15959556 (64.73%) aligned exactly 1 time 6153732 (24.96%) aligned >1 times 89.69% overall alignment rate Time searching: 00:06:09 Overall time: 00:06:09 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 12 files... [bam_rmdupse_core] 11008340 / 22113288 = 0.4978 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 20:58:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.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 20:58:30: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:58:30: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:58:36: 1000000 INFO @ Sun, 21 Jun 2020 20:58:42: 2000000 INFO @ Sun, 21 Jun 2020 20:58:48: 3000000 INFO @ Sun, 21 Jun 2020 20:58:54: 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 20:58:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.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 20:58:59: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:58:59: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:59:00: 5000000 INFO @ Sun, 21 Jun 2020 20:59:06: 1000000 INFO @ Sun, 21 Jun 2020 20:59:07: 6000000 INFO @ Sun, 21 Jun 2020 20:59:13: 2000000 INFO @ Sun, 21 Jun 2020 20:59:13: 7000000 INFO @ Sun, 21 Jun 2020 20:59:20: 3000000 INFO @ Sun, 21 Jun 2020 20:59:20: 8000000 INFO @ Sun, 21 Jun 2020 20:59:27: 4000000 INFO @ Sun, 21 Jun 2020 20:59:27: 9000000 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 20:59:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.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 20:59:29: #1 read tag files... INFO @ Sun, 21 Jun 2020 20:59:29: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 20:59:34: 5000000 INFO @ Sun, 21 Jun 2020 20:59:34: 10000000 INFO @ Sun, 21 Jun 2020 20:59:37: 1000000 INFO @ Sun, 21 Jun 2020 20:59:41: 6000000 INFO @ Sun, 21 Jun 2020 20:59:41: 11000000 INFO @ Sun, 21 Jun 2020 20:59:42: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 20:59:42: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 20:59:42: #1 total tags in treatment: 11104948 INFO @ Sun, 21 Jun 2020 20:59:42: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 20:59:42: #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 20:59:43: #1 tags after filtering in treatment: 11104946 INFO @ Sun, 21 Jun 2020 20:59:43: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 20:59:43: #1 finished! INFO @ Sun, 21 Jun 2020 20:59:43: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 20:59:43: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 20:59:44: #2 number of paired peaks: 1527 INFO @ Sun, 21 Jun 2020 20:59:44: start model_add_line... INFO @ Sun, 21 Jun 2020 20:59:44: 2000000 INFO @ Sun, 21 Jun 2020 20:59:44: start X-correlation... INFO @ Sun, 21 Jun 2020 20:59:44: end of X-cor INFO @ Sun, 21 Jun 2020 20:59:44: #2 finished! INFO @ Sun, 21 Jun 2020 20:59:44: #2 predicted fragment length is 108 bps INFO @ Sun, 21 Jun 2020 20:59:44: #2 alternative fragment length(s) may be 4,108 bps INFO @ Sun, 21 Jun 2020 20:59:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05_model.r INFO @ Sun, 21 Jun 2020 20:59:44: #3 Call peaks... INFO @ Sun, 21 Jun 2020 20:59:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 20:59:48: 7000000 INFO @ Sun, 21 Jun 2020 20:59:51: 3000000 INFO @ Sun, 21 Jun 2020 20:59:55: 8000000 INFO @ Sun, 21 Jun 2020 20:59:58: 4000000 INFO @ Sun, 21 Jun 2020 21:00:02: 9000000 INFO @ Sun, 21 Jun 2020 21:00:05: 5000000 INFO @ Sun, 21 Jun 2020 21:00:09: 10000000 INFO @ Sun, 21 Jun 2020 21:00:12: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:00:12: 6000000 INFO @ Sun, 21 Jun 2020 21:00:17: 11000000 INFO @ Sun, 21 Jun 2020 21:00:17: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:00:17: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:00:17: #1 total tags in treatment: 11104948 INFO @ Sun, 21 Jun 2020 21:00:17: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:00:17: #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 21:00:18: #1 tags after filtering in treatment: 11104946 INFO @ Sun, 21 Jun 2020 21:00:18: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:00:18: #1 finished! INFO @ Sun, 21 Jun 2020 21:00:18: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:00:18: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:00:19: #2 number of paired peaks: 1527 INFO @ Sun, 21 Jun 2020 21:00:19: start model_add_line... INFO @ Sun, 21 Jun 2020 21:00:19: start X-correlation... INFO @ Sun, 21 Jun 2020 21:00:19: end of X-cor INFO @ Sun, 21 Jun 2020 21:00:19: #2 finished! INFO @ Sun, 21 Jun 2020 21:00:19: #2 predicted fragment length is 108 bps INFO @ Sun, 21 Jun 2020 21:00:19: #2 alternative fragment length(s) may be 4,108 bps INFO @ Sun, 21 Jun 2020 21:00:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10_model.r INFO @ Sun, 21 Jun 2020 21:00:19: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:00:19: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:00:19: 7000000 INFO @ Sun, 21 Jun 2020 21:00:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:00:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:00:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.05_summits.bed INFO @ Sun, 21 Jun 2020 21:00:26: Done! INFO @ Sun, 21 Jun 2020 21:00:26: 8000000 pass1 - making usageList (781 chroms): 2 millis pass2 - checking and writing primary data (6756 records, 4 fields): 29 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:00:33: 9000000 INFO @ Sun, 21 Jun 2020 21:00:39: 10000000 INFO @ Sun, 21 Jun 2020 21:00:46: 11000000 INFO @ Sun, 21 Jun 2020 21:00:46: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:00:47: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 21:00:47: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 21:00:47: #1 total tags in treatment: 11104948 INFO @ Sun, 21 Jun 2020 21:00:47: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:00:47: #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 21:00:47: #1 tags after filtering in treatment: 11104946 INFO @ Sun, 21 Jun 2020 21:00:47: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:00:47: #1 finished! INFO @ Sun, 21 Jun 2020 21:00:47: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:00:47: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:00:48: #2 number of paired peaks: 1527 INFO @ Sun, 21 Jun 2020 21:00:48: start model_add_line... INFO @ Sun, 21 Jun 2020 21:00:48: start X-correlation... INFO @ Sun, 21 Jun 2020 21:00:48: end of X-cor INFO @ Sun, 21 Jun 2020 21:00:48: #2 finished! INFO @ Sun, 21 Jun 2020 21:00:48: #2 predicted fragment length is 108 bps INFO @ Sun, 21 Jun 2020 21:00:48: #2 alternative fragment length(s) may be 4,108 bps INFO @ Sun, 21 Jun 2020 21:00:48: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20_model.r INFO @ Sun, 21 Jun 2020 21:00:48: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:00:48: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:01:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:01:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:01:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.10_summits.bed INFO @ Sun, 21 Jun 2020 21:01:00: Done! pass1 - making usageList (584 chroms): 1 millis pass2 - checking and writing primary data (3299 records, 4 fields): 21 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:01:15: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:01:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:01:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:01:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX4669023/SRX4669023.20_summits.bed INFO @ Sun, 21 Jun 2020 21:01:28: Done! pass1 - making usageList (308 chroms): 1 millis pass2 - checking and writing primary data (1163 records, 4 fields): 17 millis CompletedMACS2peakCalling