Job ID = 6529277 SRX = SRX1167420 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: 00:12:10 34750893 reads; of these: 34750893 (100.00%) were unpaired; of these: 1350226 (3.89%) aligned 0 times 13297123 (38.26%) aligned exactly 1 time 20103544 (57.85%) aligned >1 times 96.11% overall alignment rate Time searching: 00:12:10 Overall time: 00:12:10 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 16 files... [bam_rmdupse_core] 8592496 / 33400667 = 0.2573 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, 30 Jun 2020 01:47:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.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, 30 Jun 2020 01:47:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:18: 1000000 INFO @ Tue, 30 Jun 2020 01:47:23: 2000000 INFO @ Tue, 30 Jun 2020 01:47:29: 3000000 INFO @ Tue, 30 Jun 2020 01:47:34: 4000000 INFO @ Tue, 30 Jun 2020 01:47:40: 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, 30 Jun 2020 01:47:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.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, 30 Jun 2020 01:47:42: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:47:42: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:47:46: 6000000 INFO @ Tue, 30 Jun 2020 01:47:50: 1000000 INFO @ Tue, 30 Jun 2020 01:47:52: 7000000 INFO @ Tue, 30 Jun 2020 01:47:57: 2000000 INFO @ Tue, 30 Jun 2020 01:47:59: 8000000 INFO @ Tue, 30 Jun 2020 01:48:05: 3000000 INFO @ Tue, 30 Jun 2020 01:48:06: 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, 30 Jun 2020 01:48:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.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, 30 Jun 2020 01:48:12: #1 read tag files... INFO @ Tue, 30 Jun 2020 01:48:12: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 01:48:12: 4000000 INFO @ Tue, 30 Jun 2020 01:48:12: 10000000 INFO @ Tue, 30 Jun 2020 01:48:19: 11000000 INFO @ Tue, 30 Jun 2020 01:48:20: 1000000 INFO @ Tue, 30 Jun 2020 01:48:20: 5000000 INFO @ Tue, 30 Jun 2020 01:48:26: 12000000 INFO @ Tue, 30 Jun 2020 01:48:27: 2000000 INFO @ Tue, 30 Jun 2020 01:48:28: 6000000 INFO @ Tue, 30 Jun 2020 01:48:32: 13000000 INFO @ Tue, 30 Jun 2020 01:48:35: 3000000 INFO @ Tue, 30 Jun 2020 01:48:35: 7000000 INFO @ Tue, 30 Jun 2020 01:48:39: 14000000 INFO @ Tue, 30 Jun 2020 01:48:43: 8000000 INFO @ Tue, 30 Jun 2020 01:48:43: 4000000 INFO @ Tue, 30 Jun 2020 01:48:45: 15000000 INFO @ Tue, 30 Jun 2020 01:48:51: 9000000 INFO @ Tue, 30 Jun 2020 01:48:51: 5000000 INFO @ Tue, 30 Jun 2020 01:48:52: 16000000 INFO @ Tue, 30 Jun 2020 01:48:58: 10000000 INFO @ Tue, 30 Jun 2020 01:48:58: 6000000 INFO @ Tue, 30 Jun 2020 01:48:59: 17000000 INFO @ Tue, 30 Jun 2020 01:49:06: 18000000 INFO @ Tue, 30 Jun 2020 01:49:06: 11000000 INFO @ Tue, 30 Jun 2020 01:49:06: 7000000 INFO @ Tue, 30 Jun 2020 01:49:12: 19000000 INFO @ Tue, 30 Jun 2020 01:49:14: 8000000 INFO @ Tue, 30 Jun 2020 01:49:14: 12000000 INFO @ Tue, 30 Jun 2020 01:49:19: 20000000 INFO @ Tue, 30 Jun 2020 01:49:21: 9000000 INFO @ Tue, 30 Jun 2020 01:49:21: 13000000 INFO @ Tue, 30 Jun 2020 01:49:26: 21000000 INFO @ Tue, 30 Jun 2020 01:49:29: 10000000 INFO @ Tue, 30 Jun 2020 01:49:29: 14000000 INFO @ Tue, 30 Jun 2020 01:49:32: 22000000 INFO @ Tue, 30 Jun 2020 01:49:36: 11000000 INFO @ Tue, 30 Jun 2020 01:49:37: 15000000 INFO @ Tue, 30 Jun 2020 01:49:39: 23000000 INFO @ Tue, 30 Jun 2020 01:49:44: 12000000 INFO @ Tue, 30 Jun 2020 01:49:44: 16000000 INFO @ Tue, 30 Jun 2020 01:49:46: 24000000 INFO @ Tue, 30 Jun 2020 01:49:51: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:49:51: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:49:51: #1 total tags in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:49:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:49:51: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:49:52: 17000000 INFO @ Tue, 30 Jun 2020 01:49:52: 13000000 INFO @ Tue, 30 Jun 2020 01:49:52: #1 tags after filtering in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:49:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:49:52: #1 finished! INFO @ Tue, 30 Jun 2020 01:49:52: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:49:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:49:54: #2 number of paired peaks: 1639 INFO @ Tue, 30 Jun 2020 01:49:54: start model_add_line... INFO @ Tue, 30 Jun 2020 01:49:54: start X-correlation... INFO @ Tue, 30 Jun 2020 01:49:54: end of X-cor INFO @ Tue, 30 Jun 2020 01:49:54: #2 finished! INFO @ Tue, 30 Jun 2020 01:49:54: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:49:54: #2 alternative fragment length(s) may be 2,31,591 bps INFO @ Tue, 30 Jun 2020 01:49:54: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05_model.r WARNING @ Tue, 30 Jun 2020 01:49:54: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:49:54: #2 You may need to consider one of the other alternative d(s): 2,31,591 WARNING @ Tue, 30 Jun 2020 01:49:54: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:49:54: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:49:54: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:49:59: 14000000 INFO @ Tue, 30 Jun 2020 01:49:59: 18000000 INFO @ Tue, 30 Jun 2020 01:50:06: 15000000 INFO @ Tue, 30 Jun 2020 01:50:06: 19000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 01:50:13: 16000000 INFO @ Tue, 30 Jun 2020 01:50:14: 20000000 INFO @ Tue, 30 Jun 2020 01:50:20: 17000000 INFO @ Tue, 30 Jun 2020 01:50:21: 21000000 INFO @ Tue, 30 Jun 2020 01:50:28: 18000000 INFO @ Tue, 30 Jun 2020 01:50:28: 22000000 INFO @ Tue, 30 Jun 2020 01:50:28: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:50:35: 19000000 INFO @ Tue, 30 Jun 2020 01:50:35: 23000000 INFO @ Tue, 30 Jun 2020 01:50:42: 20000000 INFO @ Tue, 30 Jun 2020 01:50:42: 24000000 INFO @ Tue, 30 Jun 2020 01:50:45: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05_peaks.xls INFO @ Tue, 30 Jun 2020 01:50:45: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:50:45: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.05_summits.bed INFO @ Tue, 30 Jun 2020 01:50:45: Done! pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:50:48: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:50:48: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:50:48: #1 total tags in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:50:48: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:50:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:50:49: #1 tags after filtering in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:50:49: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:50:49: #1 finished! INFO @ Tue, 30 Jun 2020 01:50:49: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:50:49: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:50:49: 21000000 INFO @ Tue, 30 Jun 2020 01:50:51: #2 number of paired peaks: 1639 INFO @ Tue, 30 Jun 2020 01:50:51: start model_add_line... INFO @ Tue, 30 Jun 2020 01:50:51: start X-correlation... INFO @ Tue, 30 Jun 2020 01:50:51: end of X-cor INFO @ Tue, 30 Jun 2020 01:50:51: #2 finished! INFO @ Tue, 30 Jun 2020 01:50:51: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:50:51: #2 alternative fragment length(s) may be 2,31,591 bps INFO @ Tue, 30 Jun 2020 01:50:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10_model.r WARNING @ Tue, 30 Jun 2020 01:50:51: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:50:51: #2 You may need to consider one of the other alternative d(s): 2,31,591 WARNING @ Tue, 30 Jun 2020 01:50:51: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:50:51: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:50:51: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 01:50:56: 22000000 INFO @ Tue, 30 Jun 2020 01:51:03: 23000000 INFO @ Tue, 30 Jun 2020 01:51:10: 24000000 INFO @ Tue, 30 Jun 2020 01:51:16: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 01:51:16: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 01:51:16: #1 total tags in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:51:16: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 01:51:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 01:51:17: #1 tags after filtering in treatment: 24808171 INFO @ Tue, 30 Jun 2020 01:51:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 01:51:17: #1 finished! INFO @ Tue, 30 Jun 2020 01:51:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 01:51:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 01:51:18: #2 number of paired peaks: 1639 INFO @ Tue, 30 Jun 2020 01:51:18: start model_add_line... INFO @ Tue, 30 Jun 2020 01:51:18: start X-correlation... INFO @ Tue, 30 Jun 2020 01:51:18: end of X-cor INFO @ Tue, 30 Jun 2020 01:51:18: #2 finished! INFO @ Tue, 30 Jun 2020 01:51:18: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 01:51:18: #2 alternative fragment length(s) may be 2,31,591 bps INFO @ Tue, 30 Jun 2020 01:51:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20_model.r WARNING @ Tue, 30 Jun 2020 01:51:18: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 01:51:18: #2 You may need to consider one of the other alternative d(s): 2,31,591 WARNING @ Tue, 30 Jun 2020 01:51:18: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 01:51:18: #3 Call peaks... INFO @ Tue, 30 Jun 2020 01:51:18: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 01:51:25: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:51:42: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10_peaks.xls INFO @ Tue, 30 Jun 2020 01:51:42: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:51:42: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.10_summits.bed INFO @ Tue, 30 Jun 2020 01:51:42: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 01:51:53: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 01:52:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20_peaks.xls INFO @ Tue, 30 Jun 2020 01:52:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 01:52:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX1167420/SRX1167420.20_summits.bed INFO @ Tue, 30 Jun 2020 01:52:09: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling