Job ID = 6453916 SRX = SRX159172 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T08:36:24 prefetch.2.10.7: 1) Downloading 'SRR520453'... 2020-06-21T08:36:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T08:39:20 prefetch.2.10.7: HTTPS download succeed 2020-06-21T08:39:20 prefetch.2.10.7: 1) 'SRR520453' was downloaded successfully Read 27820142 spots for SRR520453/SRR520453.sra Written 27820142 spots for SRR520453/SRR520453.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: 00:05:49 27820142 reads; of these: 27820142 (100.00%) were unpaired; of these: 1600172 (5.75%) aligned 0 times 19520857 (70.17%) aligned exactly 1 time 6699113 (24.08%) aligned >1 times 94.25% overall alignment rate Time searching: 00:05:49 Overall time: 00:05:49 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] 7220536 / 26219970 = 0.2754 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 17:51:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.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 17:51:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:51:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:51:28: 1000000 INFO @ Sun, 21 Jun 2020 17:51:34: 2000000 INFO @ Sun, 21 Jun 2020 17:51:40: 3000000 INFO @ Sun, 21 Jun 2020 17:51:45: 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 17:51:51: 5000000 INFO @ Sun, 21 Jun 2020 17:51:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.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 17:51:52: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:51:52: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:51:57: 6000000 INFO @ Sun, 21 Jun 2020 17:51:58: 1000000 INFO @ Sun, 21 Jun 2020 17:52:03: 7000000 INFO @ Sun, 21 Jun 2020 17:52:03: 2000000 INFO @ Sun, 21 Jun 2020 17:52:09: 3000000 INFO @ Sun, 21 Jun 2020 17:52:09: 8000000 INFO @ Sun, 21 Jun 2020 17:52:14: 4000000 INFO @ Sun, 21 Jun 2020 17:52:15: 9000000 INFO @ Sun, 21 Jun 2020 17:52:20: 5000000 INFO @ Sun, 21 Jun 2020 17:52:21: 10000000 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 17:52:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.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 17:52:22: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:52:22: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:52:25: 6000000 INFO @ Sun, 21 Jun 2020 17:52:27: 11000000 INFO @ Sun, 21 Jun 2020 17:52:29: 1000000 INFO @ Sun, 21 Jun 2020 17:52:30: 7000000 INFO @ Sun, 21 Jun 2020 17:52:32: 12000000 INFO @ Sun, 21 Jun 2020 17:52:35: 2000000 INFO @ Sun, 21 Jun 2020 17:52:36: 8000000 INFO @ Sun, 21 Jun 2020 17:52:38: 13000000 INFO @ Sun, 21 Jun 2020 17:52:41: 3000000 INFO @ Sun, 21 Jun 2020 17:52:41: 9000000 INFO @ Sun, 21 Jun 2020 17:52:45: 14000000 INFO @ Sun, 21 Jun 2020 17:52:47: 10000000 INFO @ Sun, 21 Jun 2020 17:52:47: 4000000 INFO @ Sun, 21 Jun 2020 17:52:51: 15000000 INFO @ Sun, 21 Jun 2020 17:52:52: 11000000 INFO @ Sun, 21 Jun 2020 17:52:53: 5000000 INFO @ Sun, 21 Jun 2020 17:52:57: 16000000 INFO @ Sun, 21 Jun 2020 17:52:57: 12000000 INFO @ Sun, 21 Jun 2020 17:52:59: 6000000 INFO @ Sun, 21 Jun 2020 17:53:03: 13000000 INFO @ Sun, 21 Jun 2020 17:53:03: 17000000 INFO @ Sun, 21 Jun 2020 17:53:05: 7000000 INFO @ Sun, 21 Jun 2020 17:53:08: 14000000 INFO @ Sun, 21 Jun 2020 17:53:10: 18000000 INFO @ Sun, 21 Jun 2020 17:53:11: 8000000 INFO @ Sun, 21 Jun 2020 17:53:14: 15000000 INFO @ Sun, 21 Jun 2020 17:53:16: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:53:16: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:53:16: #1 total tags in treatment: 18999434 INFO @ Sun, 21 Jun 2020 17:53:16: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:53:16: #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 17:53:16: #1 tags after filtering in treatment: 18999386 INFO @ Sun, 21 Jun 2020 17:53:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:53:16: #1 finished! INFO @ Sun, 21 Jun 2020 17:53:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:53:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:53:17: 9000000 INFO @ Sun, 21 Jun 2020 17:53:18: #2 number of paired peaks: 2356 INFO @ Sun, 21 Jun 2020 17:53:18: start model_add_line... INFO @ Sun, 21 Jun 2020 17:53:18: start X-correlation... INFO @ Sun, 21 Jun 2020 17:53:18: end of X-cor INFO @ Sun, 21 Jun 2020 17:53:18: #2 finished! INFO @ Sun, 21 Jun 2020 17:53:18: #2 predicted fragment length is 135 bps INFO @ Sun, 21 Jun 2020 17:53:18: #2 alternative fragment length(s) may be 135 bps INFO @ Sun, 21 Jun 2020 17:53:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05_model.r INFO @ Sun, 21 Jun 2020 17:53:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:53:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:53:19: 16000000 INFO @ Sun, 21 Jun 2020 17:53:23: 10000000 INFO @ Sun, 21 Jun 2020 17:53:25: 17000000 INFO @ Sun, 21 Jun 2020 17:53:29: 11000000 INFO @ Sun, 21 Jun 2020 17:53:30: 18000000 INFO @ Sun, 21 Jun 2020 17:53:35: 12000000 INFO @ Sun, 21 Jun 2020 17:53:36: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:53:36: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:53:36: #1 total tags in treatment: 18999434 INFO @ Sun, 21 Jun 2020 17:53:36: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:53:36: #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 17:53:37: #1 tags after filtering in treatment: 18999386 INFO @ Sun, 21 Jun 2020 17:53:37: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:53:37: #1 finished! INFO @ Sun, 21 Jun 2020 17:53:37: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:53:37: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:53:38: #2 number of paired peaks: 2356 INFO @ Sun, 21 Jun 2020 17:53:38: start model_add_line... INFO @ Sun, 21 Jun 2020 17:53:38: start X-correlation... INFO @ Sun, 21 Jun 2020 17:53:38: end of X-cor INFO @ Sun, 21 Jun 2020 17:53:38: #2 finished! INFO @ Sun, 21 Jun 2020 17:53:38: #2 predicted fragment length is 135 bps INFO @ Sun, 21 Jun 2020 17:53:38: #2 alternative fragment length(s) may be 135 bps INFO @ Sun, 21 Jun 2020 17:53:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10_model.r INFO @ Sun, 21 Jun 2020 17:53:38: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:53:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:53:41: 13000000 INFO @ Sun, 21 Jun 2020 17:53:46: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:53:52: 15000000 INFO @ Sun, 21 Jun 2020 17:53:58: 16000000 INFO @ Sun, 21 Jun 2020 17:54:01: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:54:04: 17000000 INFO @ Sun, 21 Jun 2020 17:54:10: 18000000 INFO @ Sun, 21 Jun 2020 17:54:15: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:54:15: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:54:15: #1 total tags in treatment: 18999434 INFO @ Sun, 21 Jun 2020 17:54:15: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:54:15: #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 17:54:16: #1 tags after filtering in treatment: 18999386 INFO @ Sun, 21 Jun 2020 17:54:16: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:54:16: #1 finished! INFO @ Sun, 21 Jun 2020 17:54:16: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:54:16: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:54:17: #2 number of paired peaks: 2356 INFO @ Sun, 21 Jun 2020 17:54:17: start model_add_line... INFO @ Sun, 21 Jun 2020 17:54:18: start X-correlation... INFO @ Sun, 21 Jun 2020 17:54:18: end of X-cor INFO @ Sun, 21 Jun 2020 17:54:18: #2 finished! INFO @ Sun, 21 Jun 2020 17:54:18: #2 predicted fragment length is 135 bps INFO @ Sun, 21 Jun 2020 17:54:18: #2 alternative fragment length(s) may be 135 bps INFO @ Sun, 21 Jun 2020 17:54:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20_model.r INFO @ Sun, 21 Jun 2020 17:54:18: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:54:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:54:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:54:22: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:54:22: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:54:22: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.05_summits.bed INFO @ Sun, 21 Jun 2020 17:54:22: Done! pass1 - making usageList (639 chroms): 3 millis pass2 - checking and writing primary data (12761 records, 4 fields): 28 millis BigWig に変換しました。 CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:54:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:54:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:54:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.10_summits.bed INFO @ Sun, 21 Jun 2020 17:54:40: Done! pass1 - making usageList (415 chroms): 2 millis pass2 - checking and writing primary data (9030 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:55:00: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:55:20: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX159172/SRX159172.20_summits.bed INFO @ Sun, 21 Jun 2020 17:55:20: Done! pass1 - making usageList (224 chroms): 2 millis pass2 - checking and writing primary data (5862 records, 4 fields): 13 millis CompletedMACS2peakCalling