Job ID = 14167588 SRX = SRX11016835 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: 00:07:16 22858127 reads; of these: 22858127 (100.00%) were unpaired; of these: 1530585 (6.70%) aligned 0 times 18828652 (82.37%) aligned exactly 1 time 2498890 (10.93%) aligned >1 times 93.30% overall alignment rate Time searching: 00:07:16 Overall time: 00:07:16 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 12 files... [bam_rmdupse_core] 12513664 / 21327542 = 0.5867 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 12:54:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.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 @ Fri, 10 Dec 2021 12:54:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:54:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:54:28: 1000000 INFO @ Fri, 10 Dec 2021 12:54:34: 2000000 INFO @ Fri, 10 Dec 2021 12:54:40: 3000000 INFO @ Fri, 10 Dec 2021 12:54:46: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 12:54:51: 5000000 INFO @ Fri, 10 Dec 2021 12:54:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.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 @ Fri, 10 Dec 2021 12:54:52: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:54:52: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:54:57: 6000000 INFO @ Fri, 10 Dec 2021 12:54:57: 1000000 INFO @ Fri, 10 Dec 2021 12:55:02: 2000000 INFO @ Fri, 10 Dec 2021 12:55:03: 7000000 INFO @ Fri, 10 Dec 2021 12:55:08: 3000000 INFO @ Fri, 10 Dec 2021 12:55:10: 8000000 INFO @ Fri, 10 Dec 2021 12:55:13: 4000000 INFO @ Fri, 10 Dec 2021 12:55:15: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:55:15: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:55:15: #1 total tags in treatment: 8813878 INFO @ Fri, 10 Dec 2021 12:55:15: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:55:15: #1 tags after filtering in treatment: 8813842 INFO @ Fri, 10 Dec 2021 12:55:15: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:15: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:15: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:16: #2 number of paired peaks: 3540 INFO @ Fri, 10 Dec 2021 12:55:16: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:16: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:16: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:16: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:16: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:55:16: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:55:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05_model.r INFO @ Fri, 10 Dec 2021 12:55:16: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:16: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:55:18: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 10 Dec 2021 12:55:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.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 @ Fri, 10 Dec 2021 12:55:22: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:55:22: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:55:23: 6000000 INFO @ Fri, 10 Dec 2021 12:55:28: 7000000 INFO @ Fri, 10 Dec 2021 12:55:28: 1000000 INFO @ Fri, 10 Dec 2021 12:55:33: 8000000 INFO @ Fri, 10 Dec 2021 12:55:34: 2000000 INFO @ Fri, 10 Dec 2021 12:55:38: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:55:38: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:55:38: #1 total tags in treatment: 8813878 INFO @ Fri, 10 Dec 2021 12:55:38: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:55:38: #1 tags after filtering in treatment: 8813842 INFO @ Fri, 10 Dec 2021 12:55:38: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:38: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:38: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:38: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:39: #2 number of paired peaks: 3540 INFO @ Fri, 10 Dec 2021 12:55:39: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:39: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:39: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:39: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:39: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:55:39: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:55:39: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10_model.r INFO @ Fri, 10 Dec 2021 12:55:39: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:39: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:55:40: 3000000 INFO @ Fri, 10 Dec 2021 12:55:40: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:55:46: 4000000 INFO @ Fri, 10 Dec 2021 12:55:51: 5000000 INFO @ Fri, 10 Dec 2021 12:55:52: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:55:52: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:55:52: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.05_summits.bed INFO @ Fri, 10 Dec 2021 12:55:52: Done! pass1 - making usageList (450 chroms): 2 millis pass2 - checking and writing primary data (7562 records, 4 fields): 35 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:55:57: 6000000 INFO @ Fri, 10 Dec 2021 12:56:01: #3 Call peaks for each chromosome... BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:56:02: 7000000 INFO @ Fri, 10 Dec 2021 12:56:09: 8000000 INFO @ Fri, 10 Dec 2021 12:56:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.10_summits.bed INFO @ Fri, 10 Dec 2021 12:56:12: Done! pass1 - making usageList (395 chroms): 2 millis pass2 - checking and writing primary data (4997 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:56:13: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:56:13: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:56:13: #1 total tags in treatment: 8813878 INFO @ Fri, 10 Dec 2021 12:56:13: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:56:13: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:56:14: #1 tags after filtering in treatment: 8813842 INFO @ Fri, 10 Dec 2021 12:56:14: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:56:14: #1 finished! INFO @ Fri, 10 Dec 2021 12:56:14: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:56:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:56:15: #2 number of paired peaks: 3540 INFO @ Fri, 10 Dec 2021 12:56:15: start model_add_line... INFO @ Fri, 10 Dec 2021 12:56:15: start X-correlation... INFO @ Fri, 10 Dec 2021 12:56:15: end of X-cor INFO @ Fri, 10 Dec 2021 12:56:15: #2 finished! INFO @ Fri, 10 Dec 2021 12:56:15: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:56:15: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:56:15: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20_model.r INFO @ Fri, 10 Dec 2021 12:56:15: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:56:15: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:56:37: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:56:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:48: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016835/SRX11016835.20_summits.bed INFO @ Fri, 10 Dec 2021 12:56:48: Done! pass1 - making usageList (340 chroms): 1 millis pass2 - checking and writing primary data (2668 records, 4 fields): 12 millis CompletedMACS2peakCalling