Job ID = 6626658 SRX = SRX6813075 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: 00:02:39 12601622 reads; of these: 12601622 (100.00%) were unpaired; of these: 3272943 (25.97%) aligned 0 times 8208489 (65.14%) aligned exactly 1 time 1120190 (8.89%) aligned >1 times 74.03% overall alignment rate Time searching: 00:02:39 Overall time: 00:02:39 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] 1320595 / 9328679 = 0.1416 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 08:15:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.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 08:15:47: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:15:47: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:15:54: 1000000 INFO @ Tue, 14 Jul 2020 08:16:02: 2000000 INFO @ Tue, 14 Jul 2020 08:16:09: 3000000 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 08:16:17: 4000000 INFO @ Tue, 14 Jul 2020 08:16:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.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 08:16:17: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:17: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:25: 1000000 INFO @ Tue, 14 Jul 2020 08:16:25: 5000000 INFO @ Tue, 14 Jul 2020 08:16:32: 2000000 INFO @ Tue, 14 Jul 2020 08:16:33: 6000000 INFO @ Tue, 14 Jul 2020 08:16:40: 3000000 INFO @ Tue, 14 Jul 2020 08:16:42: 7000000 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 08:16:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.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 08:16:47: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:47: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:47: 4000000 INFO @ Tue, 14 Jul 2020 08:16:50: 8000000 INFO @ Tue, 14 Jul 2020 08:16:50: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:16:50: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:16:50: #1 total tags in treatment: 8008084 INFO @ Tue, 14 Jul 2020 08:16:50: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:16:50: #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 08:16:51: #1 tags after filtering in treatment: 8007899 INFO @ Tue, 14 Jul 2020 08:16:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:16:51: #1 finished! INFO @ Tue, 14 Jul 2020 08:16:51: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:16:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:16:52: #2 number of paired peaks: 7859 INFO @ Tue, 14 Jul 2020 08:16:52: start model_add_line... INFO @ Tue, 14 Jul 2020 08:16:52: start X-correlation... INFO @ Tue, 14 Jul 2020 08:16:52: end of X-cor INFO @ Tue, 14 Jul 2020 08:16:52: #2 finished! INFO @ Tue, 14 Jul 2020 08:16:52: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 08:16:52: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 08:16:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05_model.r INFO @ Tue, 14 Jul 2020 08:16:52: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:16:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:16:55: 5000000 INFO @ Tue, 14 Jul 2020 08:16:55: 1000000 INFO @ Tue, 14 Jul 2020 08:17:03: 6000000 INFO @ Tue, 14 Jul 2020 08:17:03: 2000000 INFO @ Tue, 14 Jul 2020 08:17:11: 7000000 INFO @ Tue, 14 Jul 2020 08:17:11: 3000000 INFO @ Tue, 14 Jul 2020 08:17:18: 8000000 INFO @ Tue, 14 Jul 2020 08:17:18: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:17:18: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:17:18: #1 total tags in treatment: 8008084 INFO @ Tue, 14 Jul 2020 08:17:18: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:18: #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 08:17:18: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:19: #1 tags after filtering in treatment: 8007899 INFO @ Tue, 14 Jul 2020 08:17:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:19: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:19: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:17:19: 4000000 INFO @ Tue, 14 Jul 2020 08:17:20: #2 number of paired peaks: 7859 INFO @ Tue, 14 Jul 2020 08:17:20: start model_add_line... INFO @ Tue, 14 Jul 2020 08:17:20: start X-correlation... INFO @ Tue, 14 Jul 2020 08:17:20: end of X-cor INFO @ Tue, 14 Jul 2020 08:17:20: #2 finished! INFO @ Tue, 14 Jul 2020 08:17:20: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 08:17:20: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 08:17:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10_model.r INFO @ Tue, 14 Jul 2020 08:17:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:17:20: #3 Pre-compute pvalue-qvalue table... BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:17:27: 5000000 INFO @ Tue, 14 Jul 2020 08:17:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.05_summits.bed INFO @ Tue, 14 Jul 2020 08:17:28: Done! pass1 - making usageList (260 chroms): 2 millis pass2 - checking and writing primary data (6391 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:17:34: 6000000 BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:17:41: 7000000 INFO @ Tue, 14 Jul 2020 08:17:46: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:49: 8000000 INFO @ Tue, 14 Jul 2020 08:17:49: #1 tag size is determined as 51 bps INFO @ Tue, 14 Jul 2020 08:17:49: #1 tag size = 51 INFO @ Tue, 14 Jul 2020 08:17:49: #1 total tags in treatment: 8008084 INFO @ Tue, 14 Jul 2020 08:17:49: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:49: #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 08:17:49: #1 tags after filtering in treatment: 8007899 INFO @ Tue, 14 Jul 2020 08:17:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:49: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:49: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:17:50: #2 number of paired peaks: 7859 INFO @ Tue, 14 Jul 2020 08:17:50: start model_add_line... INFO @ Tue, 14 Jul 2020 08:17:50: start X-correlation... INFO @ Tue, 14 Jul 2020 08:17:50: end of X-cor INFO @ Tue, 14 Jul 2020 08:17:50: #2 finished! INFO @ Tue, 14 Jul 2020 08:17:50: #2 predicted fragment length is 230 bps INFO @ Tue, 14 Jul 2020 08:17:50: #2 alternative fragment length(s) may be 230 bps INFO @ Tue, 14 Jul 2020 08:17:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20_model.r INFO @ Tue, 14 Jul 2020 08:17:50: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:17:50: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 08:17:55: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:55: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:55: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.10_summits.bed INFO @ Tue, 14 Jul 2020 08:17:55: Done! pass1 - making usageList (197 chroms): 1 millis pass2 - checking and writing primary data (3170 records, 4 fields): 9 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:18:17: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:18:28: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:18:28: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:18:28: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6813075/SRX6813075.20_summits.bed INFO @ Tue, 14 Jul 2020 08:18:28: Done! pass1 - making usageList (111 chroms): 1 millis pass2 - checking and writing primary data (1168 records, 4 fields): 15 millis CompletedMACS2peakCalling