Job ID = 6626661 SRX = SRX6813077 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: 00:02:38 12837980 reads; of these: 12837980 (100.00%) were unpaired; of these: 2188706 (17.05%) aligned 0 times 10080447 (78.52%) aligned exactly 1 time 568827 (4.43%) aligned >1 times 82.95% overall alignment rate Time searching: 00:02:38 Overall time: 00:02:38 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] 1838464 / 10649274 = 0.1726 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:16:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.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, 14 Jul 2020 08:16:26: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:26: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:33: 1000000 INFO @ Tue, 14 Jul 2020 08:16:39: 2000000 INFO @ Tue, 14 Jul 2020 08:16:46: 3000000 INFO @ Tue, 14 Jul 2020 08:16:52: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:16:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.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, 14 Jul 2020 08:16:56: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:56: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:59: 5000000 INFO @ Tue, 14 Jul 2020 08:17:03: 1000000 INFO @ Tue, 14 Jul 2020 08:17:06: 6000000 INFO @ Tue, 14 Jul 2020 08:17:10: 2000000 INFO @ Tue, 14 Jul 2020 08:17:13: 7000000 INFO @ Tue, 14 Jul 2020 08:17:17: 3000000 INFO @ Tue, 14 Jul 2020 08:17:20: 8000000 INFO @ Tue, 14 Jul 2020 08:17:24: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 14 Jul 2020 08:17:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.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, 14 Jul 2020 08:17:26: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:17:26: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:17:26: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:17:26: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:17:26: #1 total tags in treatment: 8810810 INFO @ Tue, 14 Jul 2020 08:17:26: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:26: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:17:27: #1 tags after filtering in treatment: 8810365 INFO @ Tue, 14 Jul 2020 08:17:27: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:27: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:27: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:27: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:17:28: #2 number of paired peaks: 15585 INFO @ Tue, 14 Jul 2020 08:17:28: start model_add_line... INFO @ Tue, 14 Jul 2020 08:17:28: start X-correlation... INFO @ Tue, 14 Jul 2020 08:17:28: end of X-cor INFO @ Tue, 14 Jul 2020 08:17:28: #2 finished! INFO @ Tue, 14 Jul 2020 08:17:28: #2 predicted fragment length is 244 bps INFO @ Tue, 14 Jul 2020 08:17:28: #2 alternative fragment length(s) may be 244 bps INFO @ Tue, 14 Jul 2020 08:17:28: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05_model.r INFO @ Tue, 14 Jul 2020 08:17:28: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:17:28: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:17:31: 5000000 INFO @ Tue, 14 Jul 2020 08:17:33: 1000000 INFO @ Tue, 14 Jul 2020 08:17:38: 6000000 INFO @ Tue, 14 Jul 2020 08:17:39: 2000000 INFO @ Tue, 14 Jul 2020 08:17:45: 7000000 INFO @ Tue, 14 Jul 2020 08:17:45: 3000000 INFO @ Tue, 14 Jul 2020 08:17:52: 4000000 INFO @ Tue, 14 Jul 2020 08:17:52: 8000000 INFO @ Tue, 14 Jul 2020 08:17:55: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:58: 5000000 INFO @ Tue, 14 Jul 2020 08:17:58: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:17:58: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:17:58: #1 total tags in treatment: 8810810 INFO @ Tue, 14 Jul 2020 08:17:58: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:17:59: #1 tags after filtering in treatment: 8810365 INFO @ Tue, 14 Jul 2020 08:17:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:59: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:59: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:18:00: #2 number of paired peaks: 15585 INFO @ Tue, 14 Jul 2020 08:18:00: start model_add_line... INFO @ Tue, 14 Jul 2020 08:18:00: start X-correlation... INFO @ Tue, 14 Jul 2020 08:18:00: end of X-cor INFO @ Tue, 14 Jul 2020 08:18:00: #2 finished! INFO @ Tue, 14 Jul 2020 08:18:00: #2 predicted fragment length is 244 bps INFO @ Tue, 14 Jul 2020 08:18:00: #2 alternative fragment length(s) may be 244 bps INFO @ Tue, 14 Jul 2020 08:18:00: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10_model.r INFO @ Tue, 14 Jul 2020 08:18:00: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:18:00: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:18:04: 6000000 INFO @ Tue, 14 Jul 2020 08:18:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:18:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:18:06: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.05_summits.bed INFO @ Tue, 14 Jul 2020 08:18:06: Done! pass1 - making usageList (49 chroms): 1 millis pass2 - checking and writing primary data (8924 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:18:10: 7000000 INFO @ Tue, 14 Jul 2020 08:18:16: 8000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:18:21: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:18:21: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:18:21: #1 total tags in treatment: 8810810 INFO @ Tue, 14 Jul 2020 08:18:21: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:18:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 14 Jul 2020 08:18:21: #1 tags after filtering in treatment: 8810365 INFO @ Tue, 14 Jul 2020 08:18:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:18:21: #1 finished! INFO @ Tue, 14 Jul 2020 08:18:21: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:18:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:18:23: #2 number of paired peaks: 15585 INFO @ Tue, 14 Jul 2020 08:18:23: start model_add_line... INFO @ Tue, 14 Jul 2020 08:18:23: start X-correlation... INFO @ Tue, 14 Jul 2020 08:18:23: end of X-cor INFO @ Tue, 14 Jul 2020 08:18:23: #2 finished! INFO @ Tue, 14 Jul 2020 08:18:23: #2 predicted fragment length is 244 bps INFO @ Tue, 14 Jul 2020 08:18:23: #2 alternative fragment length(s) may be 244 bps INFO @ Tue, 14 Jul 2020 08:18:23: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20_model.r INFO @ Tue, 14 Jul 2020 08:18:23: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:18:23: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:18:26: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:18:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:18:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:18:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.10_summits.bed INFO @ Tue, 14 Jul 2020 08:18:36: Done! pass1 - making usageList (40 chroms): 2 millis pass2 - checking and writing primary data (7350 records, 4 fields): 8 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:18:48: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:19:00: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:19:00: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:19:00: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813077/SRX6813077.20_summits.bed INFO @ Tue, 14 Jul 2020 08:19:00: Done! pass1 - making usageList (30 chroms): 1 millis pass2 - checking and writing primary data (5087 records, 4 fields): 8 millis CompletedMACS2peakCalling