Job ID = 6458406 SRX = SRX512269 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-21T12:23:34 prefetch.2.10.7: 1) Downloading 'SRR1220295'... 2020-06-21T12:23:34 prefetch.2.10.7: Downloading via HTTPS... 2020-06-21T12:30:58 prefetch.2.10.7: HTTPS download succeed 2020-06-21T12:30:58 prefetch.2.10.7: 1) 'SRR1220295' was downloaded successfully Read 52969278 spots for SRR1220295/SRR1220295.sra Written 52969278 spots for SRR1220295/SRR1220295.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: 00:10:39 52969278 reads; of these: 52969278 (100.00%) were unpaired; of these: 7506808 (14.17%) aligned 0 times 41626666 (78.59%) aligned exactly 1 time 3835804 (7.24%) aligned >1 times 85.83% overall alignment rate Time searching: 00:10:39 Overall time: 00:10:39 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 20 files... [bam_rmdupse_core] 18579572 / 45462470 = 0.4087 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 21:54:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.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 21:54:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:54:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:54:13: 1000000 INFO @ Sun, 21 Jun 2020 21:54:18: 2000000 INFO @ Sun, 21 Jun 2020 21:54:23: 3000000 INFO @ Sun, 21 Jun 2020 21:54:28: 4000000 INFO @ Sun, 21 Jun 2020 21:54:33: 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 21:54:37: 6000000 INFO @ Sun, 21 Jun 2020 21:54:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.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 21:54:38: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:54:38: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:54:43: 7000000 INFO @ Sun, 21 Jun 2020 21:54:43: 1000000 INFO @ Sun, 21 Jun 2020 21:54:48: 8000000 INFO @ Sun, 21 Jun 2020 21:54:48: 2000000 INFO @ Sun, 21 Jun 2020 21:54:53: 9000000 INFO @ Sun, 21 Jun 2020 21:54:53: 3000000 INFO @ Sun, 21 Jun 2020 21:54:58: 10000000 INFO @ Sun, 21 Jun 2020 21:54:58: 4000000 INFO @ Sun, 21 Jun 2020 21:55:03: 11000000 INFO @ Sun, 21 Jun 2020 21:55:03: 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 21:55:08: 12000000 INFO @ Sun, 21 Jun 2020 21:55:08: 6000000 INFO @ Sun, 21 Jun 2020 21:55:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.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 21:55:08: #1 read tag files... INFO @ Sun, 21 Jun 2020 21:55:08: #1 read treatment tags... INFO @ Sun, 21 Jun 2020 21:55:13: 13000000 INFO @ Sun, 21 Jun 2020 21:55:13: 7000000 INFO @ Sun, 21 Jun 2020 21:55:13: 1000000 INFO @ Sun, 21 Jun 2020 21:55:18: 14000000 INFO @ Sun, 21 Jun 2020 21:55:18: 8000000 INFO @ Sun, 21 Jun 2020 21:55:18: 2000000 INFO @ Sun, 21 Jun 2020 21:55:23: 15000000 INFO @ Sun, 21 Jun 2020 21:55:23: 9000000 INFO @ Sun, 21 Jun 2020 21:55:24: 3000000 INFO @ Sun, 21 Jun 2020 21:55:28: 16000000 INFO @ Sun, 21 Jun 2020 21:55:28: 10000000 INFO @ Sun, 21 Jun 2020 21:55:29: 4000000 INFO @ Sun, 21 Jun 2020 21:55:33: 17000000 INFO @ Sun, 21 Jun 2020 21:55:33: 11000000 INFO @ Sun, 21 Jun 2020 21:55:34: 5000000 INFO @ Sun, 21 Jun 2020 21:55:38: 18000000 INFO @ Sun, 21 Jun 2020 21:55:38: 12000000 INFO @ Sun, 21 Jun 2020 21:55:39: 6000000 INFO @ Sun, 21 Jun 2020 21:55:43: 19000000 INFO @ Sun, 21 Jun 2020 21:55:43: 13000000 INFO @ Sun, 21 Jun 2020 21:55:44: 7000000 INFO @ Sun, 21 Jun 2020 21:55:48: 20000000 INFO @ Sun, 21 Jun 2020 21:55:48: 14000000 INFO @ Sun, 21 Jun 2020 21:55:49: 8000000 INFO @ Sun, 21 Jun 2020 21:55:53: 21000000 INFO @ Sun, 21 Jun 2020 21:55:53: 15000000 INFO @ Sun, 21 Jun 2020 21:55:54: 9000000 INFO @ Sun, 21 Jun 2020 21:55:58: 22000000 INFO @ Sun, 21 Jun 2020 21:55:58: 16000000 INFO @ Sun, 21 Jun 2020 21:55:59: 10000000 INFO @ Sun, 21 Jun 2020 21:56:03: 17000000 INFO @ Sun, 21 Jun 2020 21:56:04: 23000000 INFO @ Sun, 21 Jun 2020 21:56:04: 11000000 INFO @ Sun, 21 Jun 2020 21:56:08: 18000000 INFO @ Sun, 21 Jun 2020 21:56:09: 24000000 INFO @ Sun, 21 Jun 2020 21:56:09: 12000000 INFO @ Sun, 21 Jun 2020 21:56:13: 19000000 INFO @ Sun, 21 Jun 2020 21:56:14: 25000000 INFO @ Sun, 21 Jun 2020 21:56:14: 13000000 INFO @ Sun, 21 Jun 2020 21:56:18: 20000000 INFO @ Sun, 21 Jun 2020 21:56:18: 26000000 INFO @ Sun, 21 Jun 2020 21:56:19: 14000000 INFO @ Sun, 21 Jun 2020 21:56:23: 21000000 INFO @ Sun, 21 Jun 2020 21:56:23: #1 tag size is determined as 46 bps INFO @ Sun, 21 Jun 2020 21:56:23: #1 tag size = 46 INFO @ Sun, 21 Jun 2020 21:56:23: #1 total tags in treatment: 26882898 INFO @ Sun, 21 Jun 2020 21:56:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:56:23: #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 21:56:24: 15000000 INFO @ Sun, 21 Jun 2020 21:56:24: #1 tags after filtering in treatment: 26882888 INFO @ Sun, 21 Jun 2020 21:56:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:56:24: #1 finished! INFO @ Sun, 21 Jun 2020 21:56:24: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:56:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:56:26: #2 number of paired peaks: 1912 INFO @ Sun, 21 Jun 2020 21:56:26: start model_add_line... INFO @ Sun, 21 Jun 2020 21:56:26: start X-correlation... INFO @ Sun, 21 Jun 2020 21:56:26: end of X-cor INFO @ Sun, 21 Jun 2020 21:56:26: #2 finished! INFO @ Sun, 21 Jun 2020 21:56:26: #2 predicted fragment length is 142 bps INFO @ Sun, 21 Jun 2020 21:56:26: #2 alternative fragment length(s) may be 142 bps INFO @ Sun, 21 Jun 2020 21:56:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05_model.r INFO @ Sun, 21 Jun 2020 21:56:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:56:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:56:27: 22000000 INFO @ Sun, 21 Jun 2020 21:56:28: 16000000 INFO @ Sun, 21 Jun 2020 21:56:33: 23000000 INFO @ Sun, 21 Jun 2020 21:56:33: 17000000 INFO @ Sun, 21 Jun 2020 21:56:38: 24000000 INFO @ Sun, 21 Jun 2020 21:56:38: 18000000 INFO @ Sun, 21 Jun 2020 21:56:43: 25000000 INFO @ Sun, 21 Jun 2020 21:56:43: 19000000 INFO @ Sun, 21 Jun 2020 21:56:47: 26000000 INFO @ Sun, 21 Jun 2020 21:56:48: 20000000 INFO @ Sun, 21 Jun 2020 21:56:53: #1 tag size is determined as 46 bps INFO @ Sun, 21 Jun 2020 21:56:53: #1 tag size = 46 INFO @ Sun, 21 Jun 2020 21:56:53: #1 total tags in treatment: 26882898 INFO @ Sun, 21 Jun 2020 21:56:53: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:56:53: #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 21:56:53: 21000000 INFO @ Sun, 21 Jun 2020 21:56:53: #1 tags after filtering in treatment: 26882888 INFO @ Sun, 21 Jun 2020 21:56:53: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:56:53: #1 finished! INFO @ Sun, 21 Jun 2020 21:56:53: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:56:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:56:55: #2 number of paired peaks: 1912 INFO @ Sun, 21 Jun 2020 21:56:55: start model_add_line... INFO @ Sun, 21 Jun 2020 21:56:56: start X-correlation... INFO @ Sun, 21 Jun 2020 21:56:56: end of X-cor INFO @ Sun, 21 Jun 2020 21:56:56: #2 finished! INFO @ Sun, 21 Jun 2020 21:56:56: #2 predicted fragment length is 142 bps INFO @ Sun, 21 Jun 2020 21:56:56: #2 alternative fragment length(s) may be 142 bps INFO @ Sun, 21 Jun 2020 21:56:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10_model.r INFO @ Sun, 21 Jun 2020 21:56:56: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:56:56: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:56:58: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sun, 21 Jun 2020 21:57:04: 23000000 INFO @ Sun, 21 Jun 2020 21:57:08: 24000000 INFO @ Sun, 21 Jun 2020 21:57:13: 25000000 INFO @ Sun, 21 Jun 2020 21:57:18: 26000000 INFO @ Sun, 21 Jun 2020 21:57:23: #1 tag size is determined as 46 bps INFO @ Sun, 21 Jun 2020 21:57:23: #1 tag size = 46 INFO @ Sun, 21 Jun 2020 21:57:23: #1 total tags in treatment: 26882898 INFO @ Sun, 21 Jun 2020 21:57:23: #1 user defined the maximum tags... INFO @ Sun, 21 Jun 2020 21:57:23: #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 21:57:24: #1 tags after filtering in treatment: 26882888 INFO @ Sun, 21 Jun 2020 21:57:24: #1 Redundant rate of treatment: 0.00 INFO @ Sun, 21 Jun 2020 21:57:24: #1 finished! INFO @ Sun, 21 Jun 2020 21:57:24: #2 Build Peak Model... INFO @ Sun, 21 Jun 2020 21:57:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 21 Jun 2020 21:57:24: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:57:26: #2 number of paired peaks: 1912 INFO @ Sun, 21 Jun 2020 21:57:26: start model_add_line... INFO @ Sun, 21 Jun 2020 21:57:26: start X-correlation... INFO @ Sun, 21 Jun 2020 21:57:26: end of X-cor INFO @ Sun, 21 Jun 2020 21:57:26: #2 finished! INFO @ Sun, 21 Jun 2020 21:57:26: #2 predicted fragment length is 142 bps INFO @ Sun, 21 Jun 2020 21:57:26: #2 alternative fragment length(s) may be 142 bps INFO @ Sun, 21 Jun 2020 21:57:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20_model.r INFO @ Sun, 21 Jun 2020 21:57:26: #3 Call peaks... INFO @ Sun, 21 Jun 2020 21:57:26: #3 Pre-compute pvalue-qvalue table... INFO @ Sun, 21 Jun 2020 21:57:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05_peaks.xls INFO @ Sun, 21 Jun 2020 21:57:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:57:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.05_summits.bed INFO @ Sun, 21 Jun 2020 21:57:53: Done! pass1 - making usageList (152 chroms): 2 millis pass2 - checking and writing primary data (12864 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:57:55: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sun, 21 Jun 2020 21:58:22: #3 Call peaks for each chromosome... INFO @ Sun, 21 Jun 2020 21:58:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.10_summits.bed INFO @ Sun, 21 Jun 2020 21:58:23: Done! pass1 - making usageList (107 chroms): 2 millis pass2 - checking and writing primary data (9827 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Sun, 21 Jun 2020 21:58:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20_peaks.xls INFO @ Sun, 21 Jun 2020 21:58:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20_peaks.narrowPeak INFO @ Sun, 21 Jun 2020 21:58:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX512269/SRX512269.20_summits.bed INFO @ Sun, 21 Jun 2020 21:58:51: Done! pass1 - making usageList (80 chroms): 1 millis pass2 - checking and writing primary data (7717 records, 4 fields): 12 millis CompletedMACS2peakCalling