Job ID = 6455285 SRX = SRX287663 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T09:57:40 prefetch.2.10.7: 1) Downloading 'SRR869851'... 2020-06-21T09:57:40 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T10:00:09 prefetch.2.10.7: HTTPS download succeed 2020-06-21T10:00:09 prefetch.2.10.7: 1) 'SRR869851' was downloaded successfully Read 17097573 spots for SRR869851/SRR869851.sra Written 17097573 spots for SRR869851/SRR869851.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: 00:03:41 17097573 reads; of these: 17097573 (100.00%) were unpaired; of these: 1231143 (7.20%) aligned 0 times 14848759 (86.85%) aligned exactly 1 time 1017671 (5.95%) aligned >1 times 92.80% overall alignment rate Time searching: 00:03:41 Overall time: 00:03:41 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] 2277157 / 15866430 = 0.1435 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 19:09:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.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 19:09:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:06: 1000000 INFO @ Sun, 21 Jun 2020 19:09:12: 2000000 INFO @ Sun, 21 Jun 2020 19:09:18: 3000000 INFO @ Sun, 21 Jun 2020 19:09:23: 4000000 INFO @ Sun, 21 Jun 2020 19:09:29: 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 19:09:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.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 19:09:31: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:09:31: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:09:35: 6000000 INFO @ Sun, 21 Jun 2020 19:09:37: 1000000 INFO @ Sun, 21 Jun 2020 19:09:41: 7000000 INFO @ Sun, 21 Jun 2020 19:09:43: 2000000 INFO @ Sun, 21 Jun 2020 19:09:47: 8000000 INFO @ Sun, 21 Jun 2020 19:09:49: 3000000 INFO @ Sun, 21 Jun 2020 19:09:53: 9000000 INFO @ Sun, 21 Jun 2020 19:09:55: 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 19:10:00: 10000000 INFO @ Sun, 21 Jun 2020 19:10:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.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 19:10:01: #1 read tag files... INFO @ Sun, 21 Jun 2020 19:10:01: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 19:10:02: 5000000 INFO @ Sun, 21 Jun 2020 19:10:06: 11000000 INFO @ Sun, 21 Jun 2020 19:10:09: 6000000 INFO @ Sun, 21 Jun 2020 19:10:09: 1000000 INFO @ Sun, 21 Jun 2020 19:10:13: 12000000 INFO @ Sun, 21 Jun 2020 19:10:15: 7000000 INFO @ Sun, 21 Jun 2020 19:10:16: 2000000 INFO @ Sun, 21 Jun 2020 19:10:21: 13000000 INFO @ Sun, 21 Jun 2020 19:10:22: 8000000 INFO @ Sun, 21 Jun 2020 19:10:24: 3000000 INFO @ Sun, 21 Jun 2020 19:10:25: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:10:25: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:10:25: #1 total tags in treatment: 13589273 INFO @ Sun, 21 Jun 2020 19:10:25: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:10:25: #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 19:10:26: #1 tags after filtering in treatment: 13589199 INFO @ Sun, 21 Jun 2020 19:10:26: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:10:26: #1 finished! INFO @ Sun, 21 Jun 2020 19:10:26: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:10:26: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:10:27: #2 number of paired peaks: 3522 INFO @ Sun, 21 Jun 2020 19:10:27: start model_add_line... INFO @ Sun, 21 Jun 2020 19:10:27: start X-correlation... INFO @ Sun, 21 Jun 2020 19:10:27: end of X-cor INFO @ Sun, 21 Jun 2020 19:10:27: #2 finished! INFO @ Sun, 21 Jun 2020 19:10:27: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 19:10:27: #2 alternative fragment length(s) may be 4,190 bps INFO @ Sun, 21 Jun 2020 19:10:27: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05_model.r INFO @ Sun, 21 Jun 2020 19:10:27: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:10:27: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:10:29: 9000000 INFO @ Sun, 21 Jun 2020 19:10:31: 4000000 INFO @ Sun, 21 Jun 2020 19:10:35: 10000000 INFO @ Sun, 21 Jun 2020 19:10:39: 5000000 INFO @ Sun, 21 Jun 2020 19:10:42: 11000000 INFO @ Sun, 21 Jun 2020 19:10:47: 6000000 INFO @ Sun, 21 Jun 2020 19:10:49: 12000000 INFO @ Sun, 21 Jun 2020 19:10:54: 7000000 INFO @ Sun, 21 Jun 2020 19:10:56: 13000000 INFO @ Sun, 21 Jun 2020 19:11:00: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:11:00: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:11:00: #1 total tags in treatment: 13589273 INFO @ Sun, 21 Jun 2020 19:11:00: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:11:00: #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 19:11:01: #1 tags after filtering in treatment: 13589199 INFO @ Sun, 21 Jun 2020 19:11:01: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:11:01: #1 finished! INFO @ Sun, 21 Jun 2020 19:11:01: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:11:01: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 19:11:02: #2 number of paired peaks: 3522 INFO @ Sun, 21 Jun 2020 19:11:02: start model_add_line... INFO @ Sun, 21 Jun 2020 19:11:02: 8000000 INFO @ Sun, 21 Jun 2020 19:11:02: start X-correlation... INFO @ Sun, 21 Jun 2020 19:11:02: end of X-cor INFO @ Sun, 21 Jun 2020 19:11:02: #2 finished! INFO @ Sun, 21 Jun 2020 19:11:02: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 19:11:02: #2 alternative fragment length(s) may be 4,190 bps INFO @ Sun, 21 Jun 2020 19:11:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10_model.r INFO @ Sun, 21 Jun 2020 19:11:02: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:11:02: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:11:04: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:11:09: 9000000 INFO @ Sun, 21 Jun 2020 19:11:16: 10000000 INFO @ Sun, 21 Jun 2020 19:11:22: 11000000 INFO @ Sun, 21 Jun 2020 19:11:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05_peaks.xls INFO @ Sun, 21 Jun 2020 19:11:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:11:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.05_summits.bed INFO @ Sun, 21 Jun 2020 19:11:24: Done! pass1 - making usageList (68 chroms): 2 millis pass2 - checking and writing primary data (9141 records, 4 fields): 12 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 19:11:29: 12000000 INFO @ Sun, 21 Jun 2020 19:11:37: 13000000 INFO @ Sun, 21 Jun 2020 19:11:39: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:11:41: #1 tag size is determined as 50 bps INFO @ Sun, 21 Jun 2020 19:11:41: #1 tag size = 50 INFO @ Sun, 21 Jun 2020 19:11:41: #1 total tags in treatment: 13589273 INFO @ Sun, 21 Jun 2020 19:11:41: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 19:11:41: #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 19:11:42: #1 tags after filtering in treatment: 13589199 INFO @ Sun, 21 Jun 2020 19:11:42: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 19:11:42: #1 finished! INFO @ Sun, 21 Jun 2020 19:11:42: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 19:11:42: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 19:11:43: #2 number of paired peaks: 3522 INFO @ Sun, 21 Jun 2020 19:11:43: start model_add_line... INFO @ Sun, 21 Jun 2020 19:11:43: start X-correlation... INFO @ Sun, 21 Jun 2020 19:11:43: end of X-cor INFO @ Sun, 21 Jun 2020 19:11:43: #2 finished! INFO @ Sun, 21 Jun 2020 19:11:43: #2 predicted fragment length is 190 bps INFO @ Sun, 21 Jun 2020 19:11:43: #2 alternative fragment length(s) may be 4,190 bps INFO @ Sun, 21 Jun 2020 19:11:43: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20_model.r INFO @ Sun, 21 Jun 2020 19:11:43: #3 Call peaks... INFO @ Sun, 21 Jun 2020 19:11:43: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 19:11:59: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10_peaks.xls INFO @ Sun, 21 Jun 2020 19:11:59: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:11:59: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.10_summits.bed INFO @ Sun, 21 Jun 2020 19:11:59: Done! pass1 - making usageList (48 chroms): 1 millis pass2 - checking and writing primary data (4465 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 19:12:19: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 19:12:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20_peaks.xls INFO @ Sun, 21 Jun 2020 19:12:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 19:12:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX287663/SRX287663.20_summits.bed INFO @ Sun, 21 Jun 2020 19:12:37: Done! pass1 - making usageList (37 chroms): 1 millis pass2 - checking and writing primary data (1663 records, 4 fields): 4 millis CompletedMACS2peakCalling