Job ID = 6626648 SRX = SRX6813068 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: 00:02:13 9137400 reads; of these: 9137400 (100.00%) were unpaired; of these: 425696 (4.66%) aligned 0 times 7528925 (82.40%) aligned exactly 1 time 1182779 (12.94%) aligned >1 times 95.34% overall alignment rate Time searching: 00:02:13 Overall time: 00:02:13 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_rmdupse_core] 664039 / 8711704 = 0.0762 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 08:12:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.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 08:12:14: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:12:14: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:12:20: 1000000 INFO @ Tue, 14 Jul 2020 08:12:26: 2000000 INFO @ Tue, 14 Jul 2020 08:12:31: 3000000 INFO @ Tue, 14 Jul 2020 08:12:37: 4000000 INFO @ Tue, 14 Jul 2020 08:12:42: 5000000 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 08:12:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.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 08:12:44: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:12:44: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:12:48: 6000000 INFO @ Tue, 14 Jul 2020 08:12:50: 1000000 INFO @ Tue, 14 Jul 2020 08:12:54: 7000000 INFO @ Tue, 14 Jul 2020 08:12:57: 2000000 INFO @ Tue, 14 Jul 2020 08:13:00: 8000000 INFO @ Tue, 14 Jul 2020 08:13:01: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:13:01: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:13:01: #1 total tags in treatment: 8047665 INFO @ Tue, 14 Jul 2020 08:13:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:13:01: #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 08:13:01: #1 tags after filtering in treatment: 8047607 INFO @ Tue, 14 Jul 2020 08:13:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:13:01: #1 finished! INFO @ Tue, 14 Jul 2020 08:13:01: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:13:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:13:02: #2 number of paired peaks: 4880 INFO @ Tue, 14 Jul 2020 08:13:02: start model_add_line... INFO @ Tue, 14 Jul 2020 08:13:02: start X-correlation... INFO @ Tue, 14 Jul 2020 08:13:02: end of X-cor INFO @ Tue, 14 Jul 2020 08:13:02: #2 finished! INFO @ Tue, 14 Jul 2020 08:13:02: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 08:13:02: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 08:13:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05_model.r INFO @ Tue, 14 Jul 2020 08:13:02: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:13:02: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:13:03: 3000000 INFO @ Tue, 14 Jul 2020 08:13:08: 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 08:13:14: 5000000 INFO @ Tue, 14 Jul 2020 08:13:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.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 08:13:14: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:13:14: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:13:19: 6000000 INFO @ Tue, 14 Jul 2020 08:13:20: 1000000 INFO @ Tue, 14 Jul 2020 08:13:21: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:13:25: 7000000 INFO @ Tue, 14 Jul 2020 08:13:26: 2000000 INFO @ Tue, 14 Jul 2020 08:13:30: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:13:30: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:13:30: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.05_summits.bed INFO @ Tue, 14 Jul 2020 08:13:30: Done! pass1 - making usageList (127 chroms): 1 millis pass2 - checking and writing primary data (1870 records, 4 fields): 7 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:13:31: 8000000 INFO @ Tue, 14 Jul 2020 08:13:32: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:13:32: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:13:32: #1 total tags in treatment: 8047665 INFO @ Tue, 14 Jul 2020 08:13:32: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:13:32: #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 08:13:32: 3000000 INFO @ Tue, 14 Jul 2020 08:13:32: #1 tags after filtering in treatment: 8047607 INFO @ Tue, 14 Jul 2020 08:13:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:13:32: #1 finished! INFO @ Tue, 14 Jul 2020 08:13:32: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:13:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:13:33: #2 number of paired peaks: 4880 INFO @ Tue, 14 Jul 2020 08:13:33: start model_add_line... INFO @ Tue, 14 Jul 2020 08:13:33: start X-correlation... INFO @ Tue, 14 Jul 2020 08:13:33: end of X-cor INFO @ Tue, 14 Jul 2020 08:13:33: #2 finished! INFO @ Tue, 14 Jul 2020 08:13:33: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 08:13:33: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 08:13:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10_model.r INFO @ Tue, 14 Jul 2020 08:13:33: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:13:33: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:13:38: 4000000 INFO @ Tue, 14 Jul 2020 08:13:43: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:13:49: 6000000 INFO @ Tue, 14 Jul 2020 08:13:53: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:13:55: 7000000 INFO @ Tue, 14 Jul 2020 08:14:01: 8000000 INFO @ Tue, 14 Jul 2020 08:14:01: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:14:01: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:14:01: #1 total tags in treatment: 8047665 INFO @ Tue, 14 Jul 2020 08:14:01: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:14:01: #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 08:14:01: #1 tags after filtering in treatment: 8047607 INFO @ Tue, 14 Jul 2020 08:14:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:14:01: #1 finished! INFO @ Tue, 14 Jul 2020 08:14:01: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:14:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:14:02: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:14:02: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:14:02: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.10_summits.bed INFO @ Tue, 14 Jul 2020 08:14:02: Done! pass1 - making usageList (80 chroms): 1 millis pass2 - checking and writing primary data (658 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:14:02: #2 number of paired peaks: 4880 INFO @ Tue, 14 Jul 2020 08:14:02: start model_add_line... INFO @ Tue, 14 Jul 2020 08:14:02: start X-correlation... INFO @ Tue, 14 Jul 2020 08:14:02: end of X-cor INFO @ Tue, 14 Jul 2020 08:14:02: #2 finished! INFO @ Tue, 14 Jul 2020 08:14:02: #2 predicted fragment length is 201 bps INFO @ Tue, 14 Jul 2020 08:14:02: #2 alternative fragment length(s) may be 201 bps INFO @ Tue, 14 Jul 2020 08:14:02: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20_model.r INFO @ Tue, 14 Jul 2020 08:14:02: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:14:02: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:14:23: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:14:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:14:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:14:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813068/SRX6813068.20_summits.bed INFO @ Tue, 14 Jul 2020 08:14:32: Done! pass1 - making usageList (60 chroms): 1 millis pass2 - checking and writing primary data (224 records, 4 fields): 10 millis CompletedMACS2peakCalling