Job ID = 6626671 SRX = SRX6813082 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 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: 00:02:32 13826361 reads; of these: 13826361 (100.00%) were unpaired; of these: 2260744 (16.35%) aligned 0 times 10023779 (72.50%) aligned exactly 1 time 1541838 (11.15%) aligned >1 times 83.65% overall alignment rate Time searching: 00:02:32 Overall time: 00:02:32 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] 2625005 / 11565617 = 0.2270 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 @ Tue, 14 Jul 2020 08:19:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.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 @ Tue, 14 Jul 2020 08:19:48: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:19:48: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:19:56: 1000000 INFO @ Tue, 14 Jul 2020 08:20:03: 2000000 INFO @ Tue, 14 Jul 2020 08:20:09: 3000000 INFO @ Tue, 14 Jul 2020 08:20:14: 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 @ Tue, 14 Jul 2020 08:20:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.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 @ Tue, 14 Jul 2020 08:20:18: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:20:18: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:20:20: 5000000 INFO @ Tue, 14 Jul 2020 08:20:26: 6000000 INFO @ Tue, 14 Jul 2020 08:20:26: 1000000 INFO @ Tue, 14 Jul 2020 08:20:33: 7000000 INFO @ Tue, 14 Jul 2020 08:20:35: 2000000 INFO @ Tue, 14 Jul 2020 08:20:39: 8000000 INFO @ Tue, 14 Jul 2020 08:20:42: 3000000 INFO @ Tue, 14 Jul 2020 08:20:45: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:20:45: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:20:45: #1 total tags in treatment: 8940612 INFO @ Tue, 14 Jul 2020 08:20:45: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:20:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:20:46: #1 tags after filtering in treatment: 8940582 INFO @ Tue, 14 Jul 2020 08:20:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:20:46: #1 finished! INFO @ Tue, 14 Jul 2020 08:20:46: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:20:46: #2 looking for paired plus/minus strand peaks... 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 @ Tue, 14 Jul 2020 08:20:47: #2 number of paired peaks: 4129 INFO @ Tue, 14 Jul 2020 08:20:47: start model_add_line... INFO @ Tue, 14 Jul 2020 08:20:47: start X-correlation... INFO @ Tue, 14 Jul 2020 08:20:47: end of X-cor INFO @ Tue, 14 Jul 2020 08:20:47: #2 finished! INFO @ Tue, 14 Jul 2020 08:20:47: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:20:47: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:20:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05_model.r INFO @ Tue, 14 Jul 2020 08:20:47: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:20:47: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:20:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.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 @ Tue, 14 Jul 2020 08:20:48: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:20:48: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:20:49: 4000000 INFO @ Tue, 14 Jul 2020 08:20:55: 1000000 INFO @ Tue, 14 Jul 2020 08:20:56: 5000000 INFO @ Tue, 14 Jul 2020 08:21:02: 2000000 INFO @ Tue, 14 Jul 2020 08:21:03: 6000000 INFO @ Tue, 14 Jul 2020 08:21:08: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:21:09: 3000000 INFO @ Tue, 14 Jul 2020 08:21:09: 7000000 INFO @ Tue, 14 Jul 2020 08:21:16: 4000000 INFO @ Tue, 14 Jul 2020 08:21:17: 8000000 INFO @ Tue, 14 Jul 2020 08:21:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:21:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:21:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.05_summits.bed INFO @ Tue, 14 Jul 2020 08:21:18: Done! pass1 - making usageList (255 chroms): 2 millis pass2 - checking and writing primary data (7741 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:21:23: 5000000 INFO @ Tue, 14 Jul 2020 08:21:23: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:21:23: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:21:23: #1 total tags in treatment: 8940612 INFO @ Tue, 14 Jul 2020 08:21:23: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:21:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:21:24: #1 tags after filtering in treatment: 8940582 INFO @ Tue, 14 Jul 2020 08:21:24: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:21:24: #1 finished! INFO @ Tue, 14 Jul 2020 08:21:24: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:21:24: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:21:25: #2 number of paired peaks: 4129 INFO @ Tue, 14 Jul 2020 08:21:25: start model_add_line... INFO @ Tue, 14 Jul 2020 08:21:25: start X-correlation... INFO @ Tue, 14 Jul 2020 08:21:25: end of X-cor INFO @ Tue, 14 Jul 2020 08:21:25: #2 finished! INFO @ Tue, 14 Jul 2020 08:21:25: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:21:25: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:21:25: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10_model.r INFO @ Tue, 14 Jul 2020 08:21:25: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:21:25: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:21:29: 6000000 INFO @ Tue, 14 Jul 2020 08:21:35: 7000000 INFO @ Tue, 14 Jul 2020 08:21:42: 8000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:21:48: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:21:49: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:21:49: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:21:49: #1 total tags in treatment: 8940612 INFO @ Tue, 14 Jul 2020 08:21:49: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:21:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:21:49: #1 tags after filtering in treatment: 8940582 INFO @ Tue, 14 Jul 2020 08:21:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:21:49: #1 finished! INFO @ Tue, 14 Jul 2020 08:21:49: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:21:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:21:50: #2 number of paired peaks: 4129 INFO @ Tue, 14 Jul 2020 08:21:50: start model_add_line... INFO @ Tue, 14 Jul 2020 08:21:50: start X-correlation... INFO @ Tue, 14 Jul 2020 08:21:50: end of X-cor INFO @ Tue, 14 Jul 2020 08:21:50: #2 finished! INFO @ Tue, 14 Jul 2020 08:21:50: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:21:50: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:21:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20_model.r INFO @ Tue, 14 Jul 2020 08:21:50: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:21:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:22:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:22:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:22:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.10_summits.bed INFO @ Tue, 14 Jul 2020 08:22:00: Done! pass1 - making usageList (186 chroms): 1 millis pass2 - checking and writing primary data (6323 records, 4 fields): 13 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:22:13: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:22:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:22:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:22:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813082/SRX6813082.20_summits.bed INFO @ Tue, 14 Jul 2020 08:22:25: Done! pass1 - making usageList (121 chroms): 1 millis pass2 - checking and writing primary data (4932 records, 4 fields): 10 millis CompletedMACS2peakCalling