Job ID = 16439149 SRX = SRX15206441 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: 00:05:00 19624821 reads; of these: 19624821 (100.00%) were unpaired; of these: 1958280 (9.98%) aligned 0 times 9881596 (50.35%) aligned exactly 1 time 7784945 (39.67%) aligned >1 times 90.02% overall alignment rate Time searching: 00:05:00 Overall time: 00:05:00 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] 8166758 / 17666541 = 0.4623 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 14:45:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.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 14:45:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:45:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:45:31: 1000000 INFO @ Tue, 02 Aug 2022 14:45:38: 2000000 INFO @ Tue, 02 Aug 2022 14:45:45: 3000000 INFO @ Tue, 02 Aug 2022 14:45:51: 4000000 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 14:45:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.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 14:45:53: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:45:53: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:45:58: 5000000 INFO @ Tue, 02 Aug 2022 14:46:00: 1000000 INFO @ Tue, 02 Aug 2022 14:46:05: 6000000 INFO @ Tue, 02 Aug 2022 14:46:07: 2000000 INFO @ Tue, 02 Aug 2022 14:46:12: 7000000 INFO @ Tue, 02 Aug 2022 14:46:14: 3000000 INFO @ Tue, 02 Aug 2022 14:46:19: 8000000 INFO @ Tue, 02 Aug 2022 14:46:21: 4000000 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 14:46:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.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 14:46:23: #1 read tag files... INFO @ Tue, 02 Aug 2022 14:46:23: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 14:46:26: 9000000 INFO @ Tue, 02 Aug 2022 14:46:28: 5000000 INFO @ Tue, 02 Aug 2022 14:46:30: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:46:30: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:46:30: #1 total tags in treatment: 9499783 INFO @ Tue, 02 Aug 2022 14:46:30: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:46:30: #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 14:46:30: #1 tags after filtering in treatment: 9499711 INFO @ Tue, 02 Aug 2022 14:46:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:46:30: #1 finished! INFO @ Tue, 02 Aug 2022 14:46:30: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:46:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:46:31: 1000000 INFO @ Tue, 02 Aug 2022 14:46:31: #2 number of paired peaks: 5268 INFO @ Tue, 02 Aug 2022 14:46:31: start model_add_line... INFO @ Tue, 02 Aug 2022 14:46:32: start X-correlation... INFO @ Tue, 02 Aug 2022 14:46:32: end of X-cor INFO @ Tue, 02 Aug 2022 14:46:32: #2 finished! INFO @ Tue, 02 Aug 2022 14:46:32: #2 predicted fragment length is 124 bps INFO @ Tue, 02 Aug 2022 14:46:32: #2 alternative fragment length(s) may be 4,124 bps INFO @ Tue, 02 Aug 2022 14:46:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05_model.r INFO @ Tue, 02 Aug 2022 14:46:32: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:46:32: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:46:35: 6000000 INFO @ Tue, 02 Aug 2022 14:46:38: 2000000 INFO @ Tue, 02 Aug 2022 14:46:42: 7000000 INFO @ Tue, 02 Aug 2022 14:46:44: 3000000 INFO @ Tue, 02 Aug 2022 14:46:49: 8000000 INFO @ Tue, 02 Aug 2022 14:46:51: 4000000 INFO @ Tue, 02 Aug 2022 14:46:56: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:46:56: 9000000 INFO @ Tue, 02 Aug 2022 14:46:58: 5000000 INFO @ Tue, 02 Aug 2022 14:47:00: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:47:00: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:47:00: #1 total tags in treatment: 9499783 INFO @ Tue, 02 Aug 2022 14:47:00: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:47:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 14:47:00: #1 tags after filtering in treatment: 9499711 INFO @ Tue, 02 Aug 2022 14:47:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:47:00: #1 finished! INFO @ Tue, 02 Aug 2022 14:47:00: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:47:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:47:01: #2 number of paired peaks: 5268 INFO @ Tue, 02 Aug 2022 14:47:01: start model_add_line... INFO @ Tue, 02 Aug 2022 14:47:02: start X-correlation... INFO @ Tue, 02 Aug 2022 14:47:02: end of X-cor INFO @ Tue, 02 Aug 2022 14:47:02: #2 finished! INFO @ Tue, 02 Aug 2022 14:47:02: #2 predicted fragment length is 124 bps INFO @ Tue, 02 Aug 2022 14:47:02: #2 alternative fragment length(s) may be 4,124 bps INFO @ Tue, 02 Aug 2022 14:47:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10_model.r INFO @ Tue, 02 Aug 2022 14:47:02: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:47:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:47:04: 6000000 INFO @ Tue, 02 Aug 2022 14:47:06: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05_peaks.xls INFO @ Tue, 02 Aug 2022 14:47:06: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:47:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.05_summits.bed INFO @ Tue, 02 Aug 2022 14:47:06: Done! pass1 - making usageList (580 chroms): 2 millis pass2 - checking and writing primary data (5731 records, 4 fields): 50 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:47:11: 7000000 INFO @ Tue, 02 Aug 2022 14:47:17: 8000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 14:47:24: 9000000 INFO @ Tue, 02 Aug 2022 14:47:26: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:47:27: #1 tag size is determined as 50 bps INFO @ Tue, 02 Aug 2022 14:47:27: #1 tag size = 50 INFO @ Tue, 02 Aug 2022 14:47:27: #1 total tags in treatment: 9499783 INFO @ Tue, 02 Aug 2022 14:47:27: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 14:47:27: #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 14:47:27: #1 tags after filtering in treatment: 9499711 INFO @ Tue, 02 Aug 2022 14:47:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 14:47:27: #1 finished! INFO @ Tue, 02 Aug 2022 14:47:27: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 14:47:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 14:47:28: #2 number of paired peaks: 5268 INFO @ Tue, 02 Aug 2022 14:47:28: start model_add_line... INFO @ Tue, 02 Aug 2022 14:47:28: start X-correlation... INFO @ Tue, 02 Aug 2022 14:47:28: end of X-cor INFO @ Tue, 02 Aug 2022 14:47:28: #2 finished! INFO @ Tue, 02 Aug 2022 14:47:28: #2 predicted fragment length is 124 bps INFO @ Tue, 02 Aug 2022 14:47:28: #2 alternative fragment length(s) may be 4,124 bps INFO @ Tue, 02 Aug 2022 14:47:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20_model.r INFO @ Tue, 02 Aug 2022 14:47:28: #3 Call peaks... INFO @ Tue, 02 Aug 2022 14:47:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 14:47:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10_peaks.xls INFO @ Tue, 02 Aug 2022 14:47:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:47:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.10_summits.bed INFO @ Tue, 02 Aug 2022 14:47:37: Done! pass1 - making usageList (497 chroms): 1 millis pass2 - checking and writing primary data (3215 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 14:47:52: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 14:48:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20_peaks.xls INFO @ Tue, 02 Aug 2022 14:48:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 14:48:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX15206441/SRX15206441.20_summits.bed INFO @ Tue, 02 Aug 2022 14:48:03: Done! pass1 - making usageList (385 chroms): 1 millis pass2 - checking and writing primary data (1477 records, 4 fields): 30 millis CompletedMACS2peakCalling