Job ID = 6626670 SRX = SRX6813081 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: 00:02:54 13635791 reads; of these: 13635791 (100.00%) were unpaired; of these: 2849692 (20.90%) aligned 0 times 9003436 (66.03%) aligned exactly 1 time 1782663 (13.07%) aligned >1 times 79.10% overall alignment rate Time searching: 00:02:54 Overall time: 00:02:54 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] 1521567 / 10786099 = 0.1411 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 08:20:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.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 08:20:07: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:20:07: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:20:13: 1000000 INFO @ Tue, 14 Jul 2020 08:20:19: 2000000 INFO @ Tue, 14 Jul 2020 08:20:24: 3000000 INFO @ Tue, 14 Jul 2020 08:20:30: 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 08:20:36: 5000000 INFO @ Tue, 14 Jul 2020 08:20:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.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 08:20:37: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:20:37: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:20:41: 6000000 INFO @ Tue, 14 Jul 2020 08:20:43: 1000000 INFO @ Tue, 14 Jul 2020 08:20:47: 7000000 INFO @ Tue, 14 Jul 2020 08:20:49: 2000000 INFO @ Tue, 14 Jul 2020 08:20:54: 8000000 INFO @ Tue, 14 Jul 2020 08:20:55: 3000000 INFO @ Tue, 14 Jul 2020 08:20:59: 9000000 INFO @ Tue, 14 Jul 2020 08:21:01: 4000000 INFO @ Tue, 14 Jul 2020 08:21:01: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:21:01: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:21:01: #1 total tags in treatment: 9264532 INFO @ Tue, 14 Jul 2020 08:21:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:21:01: #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 08:21:02: #1 tags after filtering in treatment: 9264497 INFO @ Tue, 14 Jul 2020 08:21:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:21:02: #1 finished! INFO @ Tue, 14 Jul 2020 08:21:02: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:21:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:21:02: #2 number of paired peaks: 2058 INFO @ Tue, 14 Jul 2020 08:21:02: start model_add_line... INFO @ Tue, 14 Jul 2020 08:21:03: start X-correlation... INFO @ Tue, 14 Jul 2020 08:21:03: end of X-cor INFO @ Tue, 14 Jul 2020 08:21:03: #2 finished! INFO @ Tue, 14 Jul 2020 08:21:03: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:21:03: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:21:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05_model.r INFO @ Tue, 14 Jul 2020 08:21:03: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:21:03: #3 Pre-compute pvalue-qvalue table... 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 08:21:06: 5000000 INFO @ Tue, 14 Jul 2020 08:21:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.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 08:21:07: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:21:07: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:21:13: 6000000 INFO @ Tue, 14 Jul 2020 08:21:14: 1000000 INFO @ Tue, 14 Jul 2020 08:21:19: 7000000 INFO @ Tue, 14 Jul 2020 08:21:20: 2000000 INFO @ Tue, 14 Jul 2020 08:21:26: 8000000 INFO @ Tue, 14 Jul 2020 08:21:27: 3000000 INFO @ Tue, 14 Jul 2020 08:21:27: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:21:32: 9000000 INFO @ Tue, 14 Jul 2020 08:21:34: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:21:34: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:21:34: #1 total tags in treatment: 9264532 INFO @ Tue, 14 Jul 2020 08:21:34: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:21:34: #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 08:21:34: 4000000 INFO @ Tue, 14 Jul 2020 08:21:34: #1 tags after filtering in treatment: 9264497 INFO @ Tue, 14 Jul 2020 08:21:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:21:34: #1 finished! INFO @ Tue, 14 Jul 2020 08:21:34: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:21:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:21:35: #2 number of paired peaks: 2058 INFO @ Tue, 14 Jul 2020 08:21:35: start model_add_line... INFO @ Tue, 14 Jul 2020 08:21:35: start X-correlation... INFO @ Tue, 14 Jul 2020 08:21:35: end of X-cor INFO @ Tue, 14 Jul 2020 08:21:35: #2 finished! INFO @ Tue, 14 Jul 2020 08:21:35: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:21:35: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:21:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10_model.r INFO @ Tue, 14 Jul 2020 08:21:35: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:21:35: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:21:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:21:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:21:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.05_summits.bed INFO @ Tue, 14 Jul 2020 08:21:39: Done! pass1 - making usageList (303 chroms): 2 millis pass2 - checking and writing primary data (6129 records, 4 fields): 15 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:21:40: 5000000 INFO @ Tue, 14 Jul 2020 08:21:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:21:53: 7000000 INFO @ Tue, 14 Jul 2020 08:21:59: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:22:00: 8000000 INFO @ Tue, 14 Jul 2020 08:22:06: 9000000 INFO @ Tue, 14 Jul 2020 08:22:08: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:22:08: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:22:08: #1 total tags in treatment: 9264532 INFO @ Tue, 14 Jul 2020 08:22:08: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:22:08: #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 08:22:08: #1 tags after filtering in treatment: 9264497 INFO @ Tue, 14 Jul 2020 08:22:08: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:22:08: #1 finished! INFO @ Tue, 14 Jul 2020 08:22:08: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:22:08: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:22:09: #2 number of paired peaks: 2058 INFO @ Tue, 14 Jul 2020 08:22:09: start model_add_line... INFO @ Tue, 14 Jul 2020 08:22:09: start X-correlation... INFO @ Tue, 14 Jul 2020 08:22:09: end of X-cor INFO @ Tue, 14 Jul 2020 08:22:09: #2 finished! INFO @ Tue, 14 Jul 2020 08:22:09: #2 predicted fragment length is 227 bps INFO @ Tue, 14 Jul 2020 08:22:09: #2 alternative fragment length(s) may be 227 bps INFO @ Tue, 14 Jul 2020 08:22:09: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20_model.r INFO @ Tue, 14 Jul 2020 08:22:09: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:22:09: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:22:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:22:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:22:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.10_summits.bed INFO @ Tue, 14 Jul 2020 08:22:10: Done! pass1 - making usageList (234 chroms): 2 millis pass2 - checking and writing primary data (4671 records, 4 fields): 24 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:22:32: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:22:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:22:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:22:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813081/SRX6813081.20_summits.bed INFO @ Tue, 14 Jul 2020 08:22:42: Done! pass1 - making usageList (158 chroms): 1 millis pass2 - checking and writing primary data (3265 records, 4 fields): 17 millis CompletedMACS2peakCalling