Job ID = 6626682 SRX = SRX6813088 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: 00:02:40 13662810 reads; of these: 13662810 (100.00%) were unpaired; of these: 2955709 (21.63%) aligned 0 times 9267245 (67.83%) aligned exactly 1 time 1439856 (10.54%) aligned >1 times 78.37% overall alignment rate Time searching: 00:02:40 Overall time: 00:02:40 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] 1641127 / 10707101 = 0.1533 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 08:23:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.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 08:23:25: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:23:25: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:23:30: 1000000 INFO @ Tue, 14 Jul 2020 08:23:35: 2000000 INFO @ Tue, 14 Jul 2020 08:23:40: 3000000 INFO @ Tue, 14 Jul 2020 08:23:45: 4000000 INFO @ Tue, 14 Jul 2020 08:23:50: 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 @ Tue, 14 Jul 2020 08:23:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.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 08:23:55: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:23:55: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:23:55: 6000000 INFO @ Tue, 14 Jul 2020 08:24:01: 7000000 INFO @ Tue, 14 Jul 2020 08:24:01: 1000000 INFO @ Tue, 14 Jul 2020 08:24:07: 8000000 INFO @ Tue, 14 Jul 2020 08:24:07: 2000000 INFO @ Tue, 14 Jul 2020 08:24:12: 9000000 INFO @ Tue, 14 Jul 2020 08:24:13: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:24:13: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:24:13: #1 total tags in treatment: 9065974 INFO @ Tue, 14 Jul 2020 08:24:13: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:24:13: #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 08:24:13: 3000000 INFO @ Tue, 14 Jul 2020 08:24:13: #1 tags after filtering in treatment: 9065914 INFO @ Tue, 14 Jul 2020 08:24:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:24:13: #1 finished! INFO @ Tue, 14 Jul 2020 08:24:13: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:24:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:24:14: #2 number of paired peaks: 8045 INFO @ Tue, 14 Jul 2020 08:24:14: start model_add_line... INFO @ Tue, 14 Jul 2020 08:24:14: start X-correlation... INFO @ Tue, 14 Jul 2020 08:24:14: end of X-cor INFO @ Tue, 14 Jul 2020 08:24:14: #2 finished! INFO @ Tue, 14 Jul 2020 08:24:14: #2 predicted fragment length is 221 bps INFO @ Tue, 14 Jul 2020 08:24:14: #2 alternative fragment length(s) may be 221 bps INFO @ Tue, 14 Jul 2020 08:24:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05_model.r INFO @ Tue, 14 Jul 2020 08:24:14: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:24:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:24:19: 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 @ Tue, 14 Jul 2020 08:24:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.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 08:24:25: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:24:25: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:24:25: 5000000 INFO @ Tue, 14 Jul 2020 08:24:30: 1000000 INFO @ Tue, 14 Jul 2020 08:24:31: 6000000 INFO @ Tue, 14 Jul 2020 08:24:36: 2000000 INFO @ Tue, 14 Jul 2020 08:24:37: 7000000 INFO @ Tue, 14 Jul 2020 08:24:42: 3000000 INFO @ Tue, 14 Jul 2020 08:24:42: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:24:43: 8000000 INFO @ Tue, 14 Jul 2020 08:24:47: 4000000 INFO @ Tue, 14 Jul 2020 08:24:49: 9000000 INFO @ Tue, 14 Jul 2020 08:24:50: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:24:50: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:24:50: #1 total tags in treatment: 9065974 INFO @ Tue, 14 Jul 2020 08:24:50: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:24:50: #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 08:24:50: #1 tags after filtering in treatment: 9065914 INFO @ Tue, 14 Jul 2020 08:24:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:24:50: #1 finished! INFO @ Tue, 14 Jul 2020 08:24:50: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:24:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:24:51: #2 number of paired peaks: 8045 INFO @ Tue, 14 Jul 2020 08:24:51: start model_add_line... INFO @ Tue, 14 Jul 2020 08:24:51: start X-correlation... INFO @ Tue, 14 Jul 2020 08:24:51: end of X-cor INFO @ Tue, 14 Jul 2020 08:24:51: #2 finished! INFO @ Tue, 14 Jul 2020 08:24:51: #2 predicted fragment length is 221 bps INFO @ Tue, 14 Jul 2020 08:24:51: #2 alternative fragment length(s) may be 221 bps INFO @ Tue, 14 Jul 2020 08:24:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10_model.r INFO @ Tue, 14 Jul 2020 08:24:51: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:24:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:24:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:24:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:24:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.05_summits.bed INFO @ Tue, 14 Jul 2020 08:24:52: Done! pass1 - making usageList (262 chroms): 1 millis pass2 - checking and writing primary data (4346 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:24:53: 5000000 INFO @ Tue, 14 Jul 2020 08:24:58: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:25:03: 7000000 INFO @ Tue, 14 Jul 2020 08:25:09: 8000000 INFO @ Tue, 14 Jul 2020 08:25:14: 9000000 INFO @ Tue, 14 Jul 2020 08:25:14: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:25:14: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:25:14: #1 total tags in treatment: 9065974 INFO @ Tue, 14 Jul 2020 08:25:14: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:25:14: #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 08:25:15: #1 tags after filtering in treatment: 9065914 INFO @ Tue, 14 Jul 2020 08:25:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:25:15: #1 finished! INFO @ Tue, 14 Jul 2020 08:25:15: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:25:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:25:16: #2 number of paired peaks: 8045 INFO @ Tue, 14 Jul 2020 08:25:16: start model_add_line... INFO @ Tue, 14 Jul 2020 08:25:16: start X-correlation... INFO @ Tue, 14 Jul 2020 08:25:16: end of X-cor INFO @ Tue, 14 Jul 2020 08:25:16: #2 finished! INFO @ Tue, 14 Jul 2020 08:25:16: #2 predicted fragment length is 221 bps INFO @ Tue, 14 Jul 2020 08:25:16: #2 alternative fragment length(s) may be 221 bps INFO @ Tue, 14 Jul 2020 08:25:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20_model.r INFO @ Tue, 14 Jul 2020 08:25:16: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:25:16: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:25:19: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:25:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:25:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:25:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.10_summits.bed INFO @ Tue, 14 Jul 2020 08:25:29: Done! pass1 - making usageList (186 chroms): 1 millis pass2 - checking and writing primary data (1996 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:25:45: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:25:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:25:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:25:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813088/SRX6813088.20_summits.bed INFO @ Tue, 14 Jul 2020 08:25:55: Done! pass1 - making usageList (117 chroms): 1 millis pass2 - checking and writing primary data (715 records, 4 fields): 17 millis CompletedMACS2peakCalling