Job ID = 16437461 SRX = SRX12764395 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: 00:02:30 18994937 reads; of these: 18994937 (100.00%) were unpaired; of these: 17857100 (94.01%) aligned 0 times 857589 (4.51%) aligned exactly 1 time 280248 (1.48%) aligned >1 times 5.99% overall alignment rate Time searching: 00:02:30 Overall time: 00:02:30 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_rmdupse_core] 99078 / 1137837 = 0.0871 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:37:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.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, 02 Aug 2022 12:37:42: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:37:42: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:37:50: 1000000 INFO @ Tue, 02 Aug 2022 12:37:50: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:37:50: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:37:50: #1 total tags in treatment: 1038759 INFO @ Tue, 02 Aug 2022 12:37:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:37:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:37:51: #1 tags after filtering in treatment: 1038282 INFO @ Tue, 02 Aug 2022 12:37:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:37:51: #1 finished! INFO @ Tue, 02 Aug 2022 12:37:51: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:37:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:37:51: #2 number of paired peaks: 7132 INFO @ Tue, 02 Aug 2022 12:37:51: start model_add_line... INFO @ Tue, 02 Aug 2022 12:37:51: start X-correlation... INFO @ Tue, 02 Aug 2022 12:37:51: end of X-cor INFO @ Tue, 02 Aug 2022 12:37:51: #2 finished! INFO @ Tue, 02 Aug 2022 12:37:51: #2 predicted fragment length is 205 bps INFO @ Tue, 02 Aug 2022 12:37:51: #2 alternative fragment length(s) may be 205 bps INFO @ Tue, 02 Aug 2022 12:37:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05_model.r INFO @ Tue, 02 Aug 2022 12:37:51: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:37:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:37:54: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:37:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05_peaks.xls INFO @ Tue, 02 Aug 2022 12:37:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:37:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.05_summits.bed INFO @ Tue, 02 Aug 2022 12:37:56: Done! pass1 - making usageList (134 chroms): 3 millis pass2 - checking and writing primary data (2302 records, 4 fields): 64 millis CompletedMACS2peakCalling WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:38:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.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, 02 Aug 2022 12:38:11: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:38:11: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 12:38:18: 1000000 INFO @ Tue, 02 Aug 2022 12:38:19: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:38:19: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:38:19: #1 total tags in treatment: 1038759 INFO @ Tue, 02 Aug 2022 12:38:19: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:38:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:38:19: #1 tags after filtering in treatment: 1038282 INFO @ Tue, 02 Aug 2022 12:38:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:38:19: #1 finished! INFO @ Tue, 02 Aug 2022 12:38:19: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:38:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:38:19: #2 number of paired peaks: 7132 INFO @ Tue, 02 Aug 2022 12:38:19: start model_add_line... INFO @ Tue, 02 Aug 2022 12:38:19: start X-correlation... INFO @ Tue, 02 Aug 2022 12:38:19: end of X-cor INFO @ Tue, 02 Aug 2022 12:38:19: #2 finished! INFO @ Tue, 02 Aug 2022 12:38:19: #2 predicted fragment length is 205 bps INFO @ Tue, 02 Aug 2022 12:38:19: #2 alternative fragment length(s) may be 205 bps INFO @ Tue, 02 Aug 2022 12:38:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10_model.r INFO @ Tue, 02 Aug 2022 12:38:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:38:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:38:22: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:38:24: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10_peaks.xls INFO @ Tue, 02 Aug 2022 12:38:24: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:38:24: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.10_summits.bed INFO @ Tue, 02 Aug 2022 12:38:24: Done! pass1 - making usageList (75 chroms): 1 millis pass2 - checking and writing primary data (743 records, 4 fields): 35 millis CompletedMACS2peakCalling BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 12:38:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.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, 02 Aug 2022 12:38:41: #1 read tag files... INFO @ Tue, 02 Aug 2022 12:38:41: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 12:38:48: 1000000 INFO @ Tue, 02 Aug 2022 12:38:48: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 12:38:48: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 12:38:48: #1 total tags in treatment: 1038759 INFO @ Tue, 02 Aug 2022 12:38:48: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 12:38:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 12:38:49: #1 tags after filtering in treatment: 1038282 INFO @ Tue, 02 Aug 2022 12:38:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 12:38:49: #1 finished! INFO @ Tue, 02 Aug 2022 12:38:49: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 12:38:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 12:38:49: #2 number of paired peaks: 7132 INFO @ Tue, 02 Aug 2022 12:38:49: start model_add_line... INFO @ Tue, 02 Aug 2022 12:38:49: start X-correlation... INFO @ Tue, 02 Aug 2022 12:38:49: end of X-cor INFO @ Tue, 02 Aug 2022 12:38:49: #2 finished! INFO @ Tue, 02 Aug 2022 12:38:49: #2 predicted fragment length is 205 bps INFO @ Tue, 02 Aug 2022 12:38:49: #2 alternative fragment length(s) may be 205 bps INFO @ Tue, 02 Aug 2022 12:38:49: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20_model.r INFO @ Tue, 02 Aug 2022 12:38:49: #3 Call peaks... INFO @ Tue, 02 Aug 2022 12:38:49: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 12:38:52: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 12:38:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20_peaks.xls INFO @ Tue, 02 Aug 2022 12:38:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 12:38:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX12764395/SRX12764395.20_summits.bed INFO @ Tue, 02 Aug 2022 12:38:54: Done! pass1 - making usageList (39 chroms): 2 millis pass2 - checking and writing primary data (195 records, 4 fields): 109 millis CompletedMACS2peakCalling