Job ID = 6626626 SRX = SRX5734950 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: 00:00:01 Multiseed full-index search: 00:09:59 24034986 reads; of these: 24034986 (100.00%) were unpaired; of these: 2597718 (10.81%) aligned 0 times 15999048 (66.57%) aligned exactly 1 time 5438220 (22.63%) aligned >1 times 89.19% overall alignment rate Time searching: 00:10:00 Overall time: 00:10:00 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] 8903904 / 21437268 = 0.4153 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 08:15:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.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 08:15:36: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:15:36: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:15:42: 1000000 INFO @ Tue, 14 Jul 2020 08:15:48: 2000000 INFO @ Tue, 14 Jul 2020 08:15:54: 3000000 INFO @ Tue, 14 Jul 2020 08:16:00: 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 08:16:05: 5000000 INFO @ Tue, 14 Jul 2020 08:16:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.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 08:16:06: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:06: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:11: 6000000 INFO @ Tue, 14 Jul 2020 08:16:12: 1000000 INFO @ Tue, 14 Jul 2020 08:16:17: 7000000 INFO @ Tue, 14 Jul 2020 08:16:18: 2000000 INFO @ Tue, 14 Jul 2020 08:16:23: 8000000 INFO @ Tue, 14 Jul 2020 08:16:23: 3000000 INFO @ Tue, 14 Jul 2020 08:16:29: 4000000 INFO @ Tue, 14 Jul 2020 08:16:29: 9000000 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 08:16:35: 5000000 INFO @ Tue, 14 Jul 2020 08:16:35: 10000000 INFO @ Tue, 14 Jul 2020 08:16:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.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 08:16:36: #1 read tag files... INFO @ Tue, 14 Jul 2020 08:16:36: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 08:16:41: 6000000 INFO @ Tue, 14 Jul 2020 08:16:42: 11000000 INFO @ Tue, 14 Jul 2020 08:16:42: 1000000 INFO @ Tue, 14 Jul 2020 08:16:47: 7000000 INFO @ Tue, 14 Jul 2020 08:16:47: 12000000 INFO @ Tue, 14 Jul 2020 08:16:49: 2000000 INFO @ Tue, 14 Jul 2020 08:16:51: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:16:51: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:16:51: #1 total tags in treatment: 12533364 INFO @ Tue, 14 Jul 2020 08:16:51: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:16:51: #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: 12533163 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: 1859 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 1 bps INFO @ Tue, 14 Jul 2020 08:16:52: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 08:16:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05_model.r WARNING @ Tue, 14 Jul 2020 08:16:52: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:16:52: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 08:16:52: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. 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 08:16:52: 8000000 INFO @ Tue, 14 Jul 2020 08:16:55: 3000000 INFO @ Tue, 14 Jul 2020 08:16:58: 9000000 INFO @ Tue, 14 Jul 2020 08:17:01: 4000000 INFO @ Tue, 14 Jul 2020 08:17:04: 10000000 INFO @ Tue, 14 Jul 2020 08:17:07: 5000000 INFO @ Tue, 14 Jul 2020 08:17:09: 11000000 INFO @ Tue, 14 Jul 2020 08:17:10: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:13: 6000000 INFO @ Tue, 14 Jul 2020 08:17:15: 12000000 INFO @ Tue, 14 Jul 2020 08:17:19: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:17:19: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:17:19: #1 total tags in treatment: 12533364 INFO @ Tue, 14 Jul 2020 08:17:19: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:19: #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 08:17:19: 7000000 INFO @ Tue, 14 Jul 2020 08:17:19: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:19: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:19: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.05_summits.bed INFO @ Tue, 14 Jul 2020 08:17:19: Done! INFO @ Tue, 14 Jul 2020 08:17:19: #1 tags after filtering in treatment: 12533163 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... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:17:20: #2 number of paired peaks: 1859 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 1 bps INFO @ Tue, 14 Jul 2020 08:17:20: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 08:17:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10_model.r WARNING @ Tue, 14 Jul 2020 08:17:20: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:17:20: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 08:17:20: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. 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... INFO @ Tue, 14 Jul 2020 08:17:25: 8000000 INFO @ Tue, 14 Jul 2020 08:17:31: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 08:17:37: 10000000 INFO @ Tue, 14 Jul 2020 08:17:39: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:17:43: 11000000 INFO @ Tue, 14 Jul 2020 08:17:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10_peaks.xls INFO @ Tue, 14 Jul 2020 08:17:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:17:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.10_summits.bed INFO @ Tue, 14 Jul 2020 08:17:49: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 08:17:49: 12000000 INFO @ Tue, 14 Jul 2020 08:17:52: #1 tag size is determined as 78 bps INFO @ Tue, 14 Jul 2020 08:17:52: #1 tag size = 78 INFO @ Tue, 14 Jul 2020 08:17:52: #1 total tags in treatment: 12533364 INFO @ Tue, 14 Jul 2020 08:17:52: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 08:17:52: #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 08:17:53: #1 tags after filtering in treatment: 12533163 INFO @ Tue, 14 Jul 2020 08:17:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 08:17:53: #1 finished! INFO @ Tue, 14 Jul 2020 08:17:53: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 08:17:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 08:17:54: #2 number of paired peaks: 1859 INFO @ Tue, 14 Jul 2020 08:17:54: start model_add_line... INFO @ Tue, 14 Jul 2020 08:17:54: start X-correlation... INFO @ Tue, 14 Jul 2020 08:17:54: end of X-cor INFO @ Tue, 14 Jul 2020 08:17:54: #2 finished! INFO @ Tue, 14 Jul 2020 08:17:54: #2 predicted fragment length is 1 bps INFO @ Tue, 14 Jul 2020 08:17:54: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 14 Jul 2020 08:17:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20_model.r WARNING @ Tue, 14 Jul 2020 08:17:54: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 08:17:54: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 14 Jul 2020 08:17:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 08:17:54: #3 Call peaks... INFO @ Tue, 14 Jul 2020 08:17:54: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 08:18:14: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 08:18:23: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20_peaks.xls INFO @ Tue, 14 Jul 2020 08:18:23: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 08:18:23: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5734950/SRX5734950.20_summits.bed INFO @ Tue, 14 Jul 2020 08:18:23: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling