Job ID = 6455223 SRX = SRX287568 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:52:40 prefetch.2.10.7: 1) Downloading 'SRR869711'... 2020-06-21T09:52:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T09:56:45 prefetch.2.10.7: HTTPS download succeed 2020-06-21T09:56:45 prefetch.2.10.7: 1) 'SRR869711' was downloaded successfully Read 23442248 spots for SRR869711/SRR869711.sra Written 23442248 spots for SRR869711/SRR869711.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: 00:05:58 23442248 reads; of these: 23442248 (100.00%) were unpaired; of these: 1160435 (4.95%) aligned 0 times 17479128 (74.56%) aligned exactly 1 time 4802685 (20.49%) aligned >1 times 95.05% overall alignment rate Time searching: 00:05:58 Overall time: 00:05:58 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] 4578391 / 22281813 = 0.2055 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 19:09:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.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 19:09:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:23: 1000000 INFO @ Sun, 21 Jun 2020 19:09:28: 2000000 INFO @ Sun, 21 Jun 2020 19:09:33: 3000000 INFO @ Sun, 21 Jun 2020 19:09:38: 4000000 INFO @ Sun, 21 Jun 2020 19:09:43: 5000000 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 19:09:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.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 19:09:48: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:48: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:48: 6000000 INFO @ Sun, 21 Jun 2020 19:09:54: 1000000 INFO @ Sun, 21 Jun 2020 19:09:54: 7000000 INFO @ Sun, 21 Jun 2020 19:09:59: 8000000 INFO @ Sun, 21 Jun 2020 19:10:00: 2000000 INFO @ Sun, 21 Jun 2020 19:10:05: 9000000 INFO @ Sun, 21 Jun 2020 19:10:06: 3000000 INFO @ Sun, 21 Jun 2020 19:10:11: 10000000 INFO @ Sun, 21 Jun 2020 19:10:12: 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 19:10:16: 11000000 INFO @ Sun, 21 Jun 2020 19:10:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.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 19:10:18: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:10:18: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:10:18: 5000000 INFO @ Sun, 21 Jun 2020 19:10:22: 12000000 INFO @ Sun, 21 Jun 2020 19:10:24: 1000000 INFO @ Sun, 21 Jun 2020 19:10:24: 6000000 INFO @ Sun, 21 Jun 2020 19:10:28: 13000000 INFO @ Sun, 21 Jun 2020 19:10:31: 7000000 INFO @ Sun, 21 Jun 2020 19:10:31: 2000000 INFO @ Sun, 21 Jun 2020 19:10:33: 14000000 INFO @ Sun, 21 Jun 2020 19:10:37: 8000000 INFO @ Sun, 21 Jun 2020 19:10:37: 3000000 INFO @ Sun, 21 Jun 2020 19:10:40: 15000000 INFO @ Sun, 21 Jun 2020 19:10:43: 9000000 INFO @ Sun, 21 Jun 2020 19:10:44: 4000000 INFO @ Sun, 21 Jun 2020 19:10:45: 16000000 INFO @ Sun, 21 Jun 2020 19:10:50: 10000000 INFO @ Sun, 21 Jun 2020 19:10:50: 5000000 INFO @ Sun, 21 Jun 2020 19:10:51: 17000000 INFO @ Sun, 21 Jun 2020 19:10:56: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:10:56: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:10:56: #1 total tags in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:10:56: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:10:56: #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 19:10:56: 11000000 INFO @ Sun, 21 Jun 2020 19:10:56: #1 tags after filtering in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:10:56: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:10:56: #1 finished! INFO @ Sun, 21 Jun 2020 19:10:56: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:10:56: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:10:57: 6000000 INFO @ Sun, 21 Jun 2020 19:10:58: #2 number of paired peaks: 1797 INFO @ Sun, 21 Jun 2020 19:10:58: start model_add_line... INFO @ Sun, 21 Jun 2020 19:10:58: start X-correlation... INFO @ Sun, 21 Jun 2020 19:10:58: end of X-cor INFO @ Sun, 21 Jun 2020 19:10:58: #2 finished! INFO @ Sun, 21 Jun 2020 19:10:58: #2 predicted fragment length is 204 bps INFO @ Sun, 21 Jun 2020 19:10:58: #2 alternative fragment length(s) may be 4,204,213 bps INFO @ Sun, 21 Jun 2020 19:10:58: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05_model.r INFO @ Sun, 21 Jun 2020 19:10:58: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:10:58: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:11:03: 12000000 INFO @ Sun, 21 Jun 2020 19:11:03: 7000000 INFO @ Sun, 21 Jun 2020 19:11:09: 13000000 INFO @ Sun, 21 Jun 2020 19:11:10: 8000000 INFO @ Sun, 21 Jun 2020 19:11:16: 14000000 INFO @ Sun, 21 Jun 2020 19:11:16: 9000000 INFO @ Sun, 21 Jun 2020 19:11:22: 15000000 INFO @ Sun, 21 Jun 2020 19:11:23: 10000000 INFO @ Sun, 21 Jun 2020 19:11:29: 16000000 INFO @ Sun, 21 Jun 2020 19:11:30: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:11:35: 17000000 INFO @ Sun, 21 Jun 2020 19:11:36: 12000000 INFO @ Sun, 21 Jun 2020 19:11:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:11:40: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:11:40: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:11:40: #1 total tags in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:11:40: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:11:40: #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 19:11:41: #1 tags after filtering in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:11:41: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:11:41: #1 finished! INFO @ Sun, 21 Jun 2020 19:11:41: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:11:41: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:11:42: #2 number of paired peaks: 1797 INFO @ Sun, 21 Jun 2020 19:11:42: start model_add_line... INFO @ Sun, 21 Jun 2020 19:11:42: start X-correlation... INFO @ Sun, 21 Jun 2020 19:11:42: end of X-cor INFO @ Sun, 21 Jun 2020 19:11:42: #2 finished! INFO @ Sun, 21 Jun 2020 19:11:42: #2 predicted fragment length is 204 bps INFO @ Sun, 21 Jun 2020 19:11:42: #2 alternative fragment length(s) may be 4,204,213 bps INFO @ Sun, 21 Jun 2020 19:11:42: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10_model.r INFO @ Sun, 21 Jun 2020 19:11:42: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:11:42: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:11:43: 13000000 INFO @ Sun, 21 Jun 2020 19:11:50: 14000000 INFO @ Sun, 21 Jun 2020 19:11:56: 15000000 INFO @ Sun, 21 Jun 2020 19:11:57: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:11:57: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:11:57: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.05_summits.bed INFO @ Sun, 21 Jun 2020 19:11:57: Done! pass1 - making usageList (614 chroms): 1 millis pass2 - checking and writing primary data (2166 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:12:03: 16000000 INFO @ Sun, 21 Jun 2020 19:12:09: 17000000 BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:12:14: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:12:14: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:12:14: #1 total tags in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:12:14: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:12:14: #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 19:12:15: #1 tags after filtering in treatment: 17703422 INFO @ Sun, 21 Jun 2020 19:12:15: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:12:15: #1 finished! INFO @ Sun, 21 Jun 2020 19:12:15: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:12:15: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:12:16: #2 number of paired peaks: 1797 INFO @ Sun, 21 Jun 2020 19:12:16: start model_add_line... INFO @ Sun, 21 Jun 2020 19:12:16: start X-correlation... INFO @ Sun, 21 Jun 2020 19:12:16: end of X-cor INFO @ Sun, 21 Jun 2020 19:12:16: #2 finished! INFO @ Sun, 21 Jun 2020 19:12:16: #2 predicted fragment length is 204 bps INFO @ Sun, 21 Jun 2020 19:12:16: #2 alternative fragment length(s) may be 4,204,213 bps INFO @ Sun, 21 Jun 2020 19:12:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20_model.r INFO @ Sun, 21 Jun 2020 19:12:16: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:12:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:12:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:12:40: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:12:40: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:12:40: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.10_summits.bed INFO @ Sun, 21 Jun 2020 19:12:40: Done! pass1 - making usageList (533 chroms): 1 millis pass2 - checking and writing primary data (1120 records, 4 fields): 16 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:12:57: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:13:15: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:13:15: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:13:15: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287568/SRX287568.20_summits.bed INFO @ Sun, 21 Jun 2020 19:13:15: Done! pass1 - making usageList (440 chroms): 1 millis pass2 - checking and writing primary data (697 records, 4 fields): 12 millis CompletedMACS2peakCalling