Job ID = 16440000 SRX = SRX14894240 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: 00:07:28 62831344 reads; of these: 62831344 (100.00%) were unpaired; of these: 42170863 (67.12%) aligned 0 times 16652293 (26.50%) aligned exactly 1 time 4008188 (6.38%) aligned >1 times 32.88% overall alignment rate Time searching: 00:07:28 Overall time: 00:07:28 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] 11338544 / 20660481 = 0.5488 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 16:47:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.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 16:47:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:47:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:47:23: 1000000 INFO @ Tue, 02 Aug 2022 16:47:30: 2000000 INFO @ Tue, 02 Aug 2022 16:47:36: 3000000 INFO @ Tue, 02 Aug 2022 16:47:42: 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 16:47:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.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 16:47:47: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:47:47: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:47:48: 5000000 INFO @ Tue, 02 Aug 2022 16:47:54: 1000000 INFO @ Tue, 02 Aug 2022 16:47:55: 6000000 INFO @ Tue, 02 Aug 2022 16:48:01: 2000000 INFO @ Tue, 02 Aug 2022 16:48:01: 7000000 INFO @ Tue, 02 Aug 2022 16:48:07: 3000000 INFO @ Tue, 02 Aug 2022 16:48:08: 8000000 INFO @ Tue, 02 Aug 2022 16:48:14: 4000000 INFO @ Tue, 02 Aug 2022 16:48:15: 9000000 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 16:48:17: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:48:17: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:48:17: #1 total tags in treatment: 9321937 INFO @ Tue, 02 Aug 2022 16:48:17: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:48:17: #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 16:48:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.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 16:48:17: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:48:17: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:48:17: #1 tags after filtering in treatment: 9321839 INFO @ Tue, 02 Aug 2022 16:48:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:48:17: #1 finished! INFO @ Tue, 02 Aug 2022 16:48:17: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:48:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:48:18: #2 number of paired peaks: 3994 INFO @ Tue, 02 Aug 2022 16:48:18: start model_add_line... INFO @ Tue, 02 Aug 2022 16:48:18: start X-correlation... INFO @ Tue, 02 Aug 2022 16:48:18: end of X-cor INFO @ Tue, 02 Aug 2022 16:48:18: #2 finished! INFO @ Tue, 02 Aug 2022 16:48:18: #2 predicted fragment length is 232 bps INFO @ Tue, 02 Aug 2022 16:48:18: #2 alternative fragment length(s) may be 232 bps INFO @ Tue, 02 Aug 2022 16:48:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05_model.r INFO @ Tue, 02 Aug 2022 16:48:19: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:48:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:48:21: 5000000 INFO @ Tue, 02 Aug 2022 16:48:23: 1000000 INFO @ Tue, 02 Aug 2022 16:48:27: 6000000 INFO @ Tue, 02 Aug 2022 16:48:29: 2000000 INFO @ Tue, 02 Aug 2022 16:48:34: 7000000 INFO @ Tue, 02 Aug 2022 16:48:36: 3000000 INFO @ Tue, 02 Aug 2022 16:48:41: 8000000 INFO @ Tue, 02 Aug 2022 16:48:42: 4000000 INFO @ Tue, 02 Aug 2022 16:48:43: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:48:47: 9000000 INFO @ Tue, 02 Aug 2022 16:48:48: 5000000 INFO @ Tue, 02 Aug 2022 16:48:50: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:48:50: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:48:50: #1 total tags in treatment: 9321937 INFO @ Tue, 02 Aug 2022 16:48:50: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:48:50: #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 16:48:50: #1 tags after filtering in treatment: 9321839 INFO @ Tue, 02 Aug 2022 16:48:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:48:50: #1 finished! INFO @ Tue, 02 Aug 2022 16:48:50: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:48:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:48:51: #2 number of paired peaks: 3994 INFO @ Tue, 02 Aug 2022 16:48:51: start model_add_line... INFO @ Tue, 02 Aug 2022 16:48:51: start X-correlation... INFO @ Tue, 02 Aug 2022 16:48:51: end of X-cor INFO @ Tue, 02 Aug 2022 16:48:51: #2 finished! INFO @ Tue, 02 Aug 2022 16:48:51: #2 predicted fragment length is 232 bps INFO @ Tue, 02 Aug 2022 16:48:51: #2 alternative fragment length(s) may be 232 bps INFO @ Tue, 02 Aug 2022 16:48:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10_model.r INFO @ Tue, 02 Aug 2022 16:48:51: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:48:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 02 Aug 2022 16:48:53: 6000000 INFO @ Tue, 02 Aug 2022 16:48:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05_peaks.xls INFO @ Tue, 02 Aug 2022 16:48:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05_peaks.narrowPeak BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:48:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.05_summits.bed INFO @ Tue, 02 Aug 2022 16:48:55: Done! pass1 - making usageList (670 chroms): 2 millis pass2 - checking and writing primary data (6182 records, 4 fields): 52 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:48:59: 7000000 INFO @ Tue, 02 Aug 2022 16:49:04: 8000000 INFO @ Tue, 02 Aug 2022 16:49:09: 9000000 INFO @ Tue, 02 Aug 2022 16:49:11: #1 tag size is determined as 51 bps INFO @ Tue, 02 Aug 2022 16:49:11: #1 tag size = 51 INFO @ Tue, 02 Aug 2022 16:49:11: #1 total tags in treatment: 9321937 INFO @ Tue, 02 Aug 2022 16:49:11: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:49:11: #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 16:49:11: #1 tags after filtering in treatment: 9321839 INFO @ Tue, 02 Aug 2022 16:49:11: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 02 Aug 2022 16:49:11: #1 finished! INFO @ Tue, 02 Aug 2022 16:49:11: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:49:11: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:49:12: #2 number of paired peaks: 3994 INFO @ Tue, 02 Aug 2022 16:49:12: start model_add_line... INFO @ Tue, 02 Aug 2022 16:49:13: start X-correlation... INFO @ Tue, 02 Aug 2022 16:49:13: end of X-cor INFO @ Tue, 02 Aug 2022 16:49:13: #2 finished! INFO @ Tue, 02 Aug 2022 16:49:13: #2 predicted fragment length is 232 bps INFO @ Tue, 02 Aug 2022 16:49:13: #2 alternative fragment length(s) may be 232 bps INFO @ Tue, 02 Aug 2022 16:49:13: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20_model.r INFO @ Tue, 02 Aug 2022 16:49:13: #3 Call peaks... INFO @ Tue, 02 Aug 2022 16:49:13: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:49:15: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:49:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10_peaks.xls INFO @ Tue, 02 Aug 2022 16:49:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:49:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.10_summits.bed INFO @ Tue, 02 Aug 2022 16:49:26: Done! pass1 - making usageList (518 chroms): 2 millis pass2 - checking and writing primary data (4960 records, 4 fields): 37 millis CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:49:37: #3 Call peaks for each chromosome... INFO @ Tue, 02 Aug 2022 16:49:48: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20_peaks.xls INFO @ Tue, 02 Aug 2022 16:49:48: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20_peaks.narrowPeak INFO @ Tue, 02 Aug 2022 16:49:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX14894240/SRX14894240.20_summits.bed INFO @ Tue, 02 Aug 2022 16:49:49: Done! pass1 - making usageList (289 chroms): 1 millis pass2 - checking and writing primary data (3776 records, 4 fields): 53 millis CompletedMACS2peakCalling