Job ID = 14167591 SRX = SRX11016834 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: 00:06:44 22874332 reads; of these: 22874332 (100.00%) were unpaired; of these: 1521232 (6.65%) aligned 0 times 18851479 (82.41%) aligned exactly 1 time 2501621 (10.94%) aligned >1 times 93.35% overall alignment rate Time searching: 00:06:44 Overall time: 00:06:44 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] 12518053 / 21353100 = 0.5862 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 12:54:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.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 12:54:29: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:54:29: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:54:36: 1000000 INFO @ Fri, 10 Dec 2021 12:54:43: 2000000 INFO @ Fri, 10 Dec 2021 12:54:49: 3000000 INFO @ Fri, 10 Dec 2021 12:54:56: 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 12:54:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.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 12:54:59: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:54:59: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:55:02: 5000000 INFO @ Fri, 10 Dec 2021 12:55:05: 1000000 INFO @ Fri, 10 Dec 2021 12:55:09: 6000000 INFO @ Fri, 10 Dec 2021 12:55:11: 2000000 INFO @ Fri, 10 Dec 2021 12:55:16: 7000000 INFO @ Fri, 10 Dec 2021 12:55:17: 3000000 INFO @ Fri, 10 Dec 2021 12:55:23: 4000000 INFO @ Fri, 10 Dec 2021 12:55:23: 8000000 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 12:55:29: 5000000 INFO @ Fri, 10 Dec 2021 12:55:29: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:55:29: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:55:29: #1 total tags in treatment: 8835047 INFO @ Fri, 10 Dec 2021 12:55:29: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:29: #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 12:55:29: #1 tags after filtering in treatment: 8835014 INFO @ Fri, 10 Dec 2021 12:55:29: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:29: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:29: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.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 12:55:29: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:55:29: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:55:30: #2 number of paired peaks: 3563 INFO @ Fri, 10 Dec 2021 12:55:30: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:30: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:30: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:30: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:30: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:55:30: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:55:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05_model.r INFO @ Fri, 10 Dec 2021 12:55:30: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:30: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:55:34: 6000000 INFO @ Fri, 10 Dec 2021 12:55:35: 1000000 INFO @ Fri, 10 Dec 2021 12:55:40: 7000000 INFO @ Fri, 10 Dec 2021 12:55:41: 2000000 INFO @ Fri, 10 Dec 2021 12:55:46: 8000000 INFO @ Fri, 10 Dec 2021 12:55:47: 3000000 INFO @ Fri, 10 Dec 2021 12:55:51: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:55:51: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:55:51: #1 total tags in treatment: 8835047 INFO @ Fri, 10 Dec 2021 12:55:51: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:55:51: #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 12:55:52: #1 tags after filtering in treatment: 8835014 INFO @ Fri, 10 Dec 2021 12:55:52: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:55:52: #1 finished! INFO @ Fri, 10 Dec 2021 12:55:52: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:55:52: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:55:52: 4000000 INFO @ Fri, 10 Dec 2021 12:55:53: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:55:53: #2 number of paired peaks: 3563 INFO @ Fri, 10 Dec 2021 12:55:53: start model_add_line... INFO @ Fri, 10 Dec 2021 12:55:53: start X-correlation... INFO @ Fri, 10 Dec 2021 12:55:53: end of X-cor INFO @ Fri, 10 Dec 2021 12:55:53: #2 finished! INFO @ Fri, 10 Dec 2021 12:55:53: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:55:53: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:55:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10_model.r INFO @ Fri, 10 Dec 2021 12:55:53: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:55:53: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:55:58: 5000000 INFO @ Fri, 10 Dec 2021 12:56:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:03: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.05_summits.bed INFO @ Fri, 10 Dec 2021 12:56:04: 6000000 INFO @ Fri, 10 Dec 2021 12:56:04: Done! pass1 - making usageList (453 chroms): 2 millis pass2 - checking and writing primary data (7560 records, 4 fields): 415 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:56:09: 7000000 INFO @ Fri, 10 Dec 2021 12:56:15: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:56:15: 8000000 INFO @ Fri, 10 Dec 2021 12:56:20: #1 tag size is determined as 76 bps INFO @ Fri, 10 Dec 2021 12:56:20: #1 tag size = 76 INFO @ Fri, 10 Dec 2021 12:56:20: #1 total tags in treatment: 8835047 INFO @ Fri, 10 Dec 2021 12:56:20: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:56:20: #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 12:56:20: #1 tags after filtering in treatment: 8835014 INFO @ Fri, 10 Dec 2021 12:56:20: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:56:20: #1 finished! INFO @ Fri, 10 Dec 2021 12:56:20: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:56:20: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:56:21: #2 number of paired peaks: 3563 INFO @ Fri, 10 Dec 2021 12:56:21: start model_add_line... INFO @ Fri, 10 Dec 2021 12:56:21: start X-correlation... INFO @ Fri, 10 Dec 2021 12:56:21: end of X-cor INFO @ Fri, 10 Dec 2021 12:56:21: #2 finished! INFO @ Fri, 10 Dec 2021 12:56:21: #2 predicted fragment length is 216 bps INFO @ Fri, 10 Dec 2021 12:56:21: #2 alternative fragment length(s) may be 216 bps INFO @ Fri, 10 Dec 2021 12:56:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20_model.r INFO @ Fri, 10 Dec 2021 12:56:21: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:56:21: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:56:25: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:25: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:25: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.10_summits.bed INFO @ Fri, 10 Dec 2021 12:56:25: Done! pass1 - making usageList (395 chroms): 2 millis pass2 - checking and writing primary data (4979 records, 4 fields): 14 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:56:43: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:56:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:56:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:56:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX11016834/SRX11016834.20_summits.bed INFO @ Fri, 10 Dec 2021 12:56:54: Done! pass1 - making usageList (339 chroms): 1 millis pass2 - checking and writing primary data (2685 records, 4 fields): 11 millis CompletedMACS2peakCalling