Job ID = 6452982 SRX = SRX085403 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T07:51:45 prefetch.2.10.7: 1) Downloading 'SRR317181'... 2020-06-21T07:51:45 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T07:57:21 prefetch.2.10.7: HTTPS download succeed 2020-06-21T07:57:21 prefetch.2.10.7: 1) 'SRR317181' was downloaded successfully Read 36819897 spots for SRR317181/SRR317181.sra Written 36819897 spots for SRR317181/SRR317181.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: 00:07:52 36819897 reads; of these: 36819897 (100.00%) were unpaired; of these: 6357003 (17.27%) aligned 0 times 24278346 (65.94%) aligned exactly 1 time 6184548 (16.80%) aligned >1 times 82.73% overall alignment rate Time searching: 00:07:52 Overall time: 00:07:52 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] 16043525 / 30462894 = 0.5267 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 17:14:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.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 17:14:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:14:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:22: 1000000 INFO @ Sun, 21 Jun 2020 17:14:27: 2000000 INFO @ Sun, 21 Jun 2020 17:14:33: 3000000 INFO @ Sun, 21 Jun 2020 17:14:38: 4000000 INFO @ Sun, 21 Jun 2020 17:14:44: 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 17:14:46: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.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 17:14:46: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:14:46: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:14:49: 6000000 INFO @ Sun, 21 Jun 2020 17:14:51: 1000000 INFO @ Sun, 21 Jun 2020 17:14:54: 7000000 INFO @ Sun, 21 Jun 2020 17:14:56: 2000000 INFO @ Sun, 21 Jun 2020 17:15:00: 8000000 INFO @ Sun, 21 Jun 2020 17:15:01: 3000000 INFO @ Sun, 21 Jun 2020 17:15:05: 9000000 INFO @ Sun, 21 Jun 2020 17:15:06: 4000000 INFO @ Sun, 21 Jun 2020 17:15:10: 10000000 INFO @ Sun, 21 Jun 2020 17:15:11: 5000000 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 17:15:15: 11000000 INFO @ Sun, 21 Jun 2020 17:15:16: 6000000 INFO @ Sun, 21 Jun 2020 17:15:16: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.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 17:15:16: #1 read tag files... INFO @ Sun, 21 Jun 2020 17:15:16: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 17:15:21: 7000000 INFO @ Sun, 21 Jun 2020 17:15:21: 12000000 INFO @ Sun, 21 Jun 2020 17:15:21: 1000000 INFO @ Sun, 21 Jun 2020 17:15:26: 8000000 INFO @ Sun, 21 Jun 2020 17:15:26: 13000000 INFO @ Sun, 21 Jun 2020 17:15:27: 2000000 INFO @ Sun, 21 Jun 2020 17:15:31: 9000000 INFO @ Sun, 21 Jun 2020 17:15:31: 14000000 INFO @ Sun, 21 Jun 2020 17:15:32: 3000000 INFO @ Sun, 21 Jun 2020 17:15:34: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:15:34: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:15:34: #1 total tags in treatment: 14419369 INFO @ Sun, 21 Jun 2020 17:15:34: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:15:34: #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 17:15:34: #1 tags after filtering in treatment: 14419312 INFO @ Sun, 21 Jun 2020 17:15:34: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:15:34: #1 finished! INFO @ Sun, 21 Jun 2020 17:15:34: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:15:34: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:15:35: #2 number of paired peaks: 2823 INFO @ Sun, 21 Jun 2020 17:15:35: start model_add_line... INFO @ Sun, 21 Jun 2020 17:15:35: start X-correlation... INFO @ Sun, 21 Jun 2020 17:15:35: end of X-cor INFO @ Sun, 21 Jun 2020 17:15:35: #2 finished! INFO @ Sun, 21 Jun 2020 17:15:35: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 17:15:35: #2 alternative fragment length(s) may be 127 bps INFO @ Sun, 21 Jun 2020 17:15:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05_model.r INFO @ Sun, 21 Jun 2020 17:15:35: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:15:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:15:35: 10000000 INFO @ Sun, 21 Jun 2020 17:15:37: 4000000 INFO @ Sun, 21 Jun 2020 17:15:40: 11000000 INFO @ Sun, 21 Jun 2020 17:15:43: 5000000 INFO @ Sun, 21 Jun 2020 17:15:45: 12000000 INFO @ Sun, 21 Jun 2020 17:15:48: 6000000 INFO @ Sun, 21 Jun 2020 17:15:50: 13000000 INFO @ Sun, 21 Jun 2020 17:15:53: 7000000 INFO @ Sun, 21 Jun 2020 17:15:55: 14000000 INFO @ Sun, 21 Jun 2020 17:15:57: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:15:57: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:15:57: #1 total tags in treatment: 14419369 INFO @ Sun, 21 Jun 2020 17:15:57: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:15:57: #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 17:15:58: #1 tags after filtering in treatment: 14419312 INFO @ Sun, 21 Jun 2020 17:15:58: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:15:58: #1 finished! INFO @ Sun, 21 Jun 2020 17:15:58: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:15:58: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:15:59: 8000000 INFO @ Sun, 21 Jun 2020 17:15:59: #2 number of paired peaks: 2823 INFO @ Sun, 21 Jun 2020 17:15:59: start model_add_line... INFO @ Sun, 21 Jun 2020 17:15:59: start X-correlation... INFO @ Sun, 21 Jun 2020 17:15:59: end of X-cor INFO @ Sun, 21 Jun 2020 17:15:59: #2 finished! INFO @ Sun, 21 Jun 2020 17:15:59: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 17:15:59: #2 alternative fragment length(s) may be 127 bps INFO @ Sun, 21 Jun 2020 17:15:59: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10_model.r INFO @ Sun, 21 Jun 2020 17:15:59: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:15:59: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:16:04: 9000000 INFO @ Sun, 21 Jun 2020 17:16:07: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:16:09: 10000000 INFO @ Sun, 21 Jun 2020 17:16:14: 11000000 INFO @ Sun, 21 Jun 2020 17:16:19: 12000000 INFO @ Sun, 21 Jun 2020 17:16:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05_peaks.xls INFO @ Sun, 21 Jun 2020 17:16:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:16:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.05_summits.bed INFO @ Sun, 21 Jun 2020 17:16:23: Done! pass1 - making usageList (627 chroms): 3 millis pass2 - checking and writing primary data (12197 records, 4 fields): 31 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 17:16:25: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 17:16:30: 14000000 INFO @ Sun, 21 Jun 2020 17:16:32: #1 tag size is determined as 36 bps INFO @ Sun, 21 Jun 2020 17:16:32: #1 tag size = 36 INFO @ Sun, 21 Jun 2020 17:16:32: #1 total tags in treatment: 14419369 INFO @ Sun, 21 Jun 2020 17:16:32: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 17:16:32: #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 17:16:33: #1 tags after filtering in treatment: 14419312 INFO @ Sun, 21 Jun 2020 17:16:33: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 17:16:33: #1 finished! INFO @ Sun, 21 Jun 2020 17:16:33: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 17:16:33: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 17:16:33: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:16:34: #2 number of paired peaks: 2823 INFO @ Sun, 21 Jun 2020 17:16:34: start model_add_line... INFO @ Sun, 21 Jun 2020 17:16:34: start X-correlation... INFO @ Sun, 21 Jun 2020 17:16:34: end of X-cor INFO @ Sun, 21 Jun 2020 17:16:34: #2 finished! INFO @ Sun, 21 Jun 2020 17:16:34: #2 predicted fragment length is 127 bps INFO @ Sun, 21 Jun 2020 17:16:34: #2 alternative fragment length(s) may be 127 bps INFO @ Sun, 21 Jun 2020 17:16:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20_model.r INFO @ Sun, 21 Jun 2020 17:16:34: #3 Call peaks... INFO @ Sun, 21 Jun 2020 17:16:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 17:16:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10_peaks.xls INFO @ Sun, 21 Jun 2020 17:16:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:16:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.10_summits.bed INFO @ Sun, 21 Jun 2020 17:16:49: Done! pass1 - making usageList (458 chroms): 2 millis pass2 - checking and writing primary data (8702 records, 4 fields): 22 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 17:17:05: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 17:17:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20_peaks.xls INFO @ Sun, 21 Jun 2020 17:17:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 17:17:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX085403/SRX085403.20_summits.bed INFO @ Sun, 21 Jun 2020 17:17:21: Done! pass1 - making usageList (259 chroms): 2 millis pass2 - checking and writing primary data (6019 records, 4 fields): 15 millis CompletedMACS2peakCalling