Job ID = 6508895 SRX = SRX495290 Genome = dm6 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... 2020-06-26T15:04:24 prefetch.2.10.7: 1) Downloading 'SRR1198795'... 2020-06-26T15:04:24 prefetch.2.10.7: Downloading via HTTPS... 2020-06-26T15:08:16 prefetch.2.10.7: HTTPS download succeed 2020-06-26T15:08:16 prefetch.2.10.7: 1) 'SRR1198795' was downloaded successfully Read 35725350 spots for SRR1198795/SRR1198795.sra Written 35725350 spots for SRR1198795/SRR1198795.sra 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: 00:13:44 35725350 reads; of these: 35725350 (100.00%) were unpaired; of these: 2472246 (6.92%) aligned 0 times 13748998 (38.49%) aligned exactly 1 time 19504106 (54.59%) aligned >1 times 93.08% overall alignment rate Time searching: 00:13:44 Overall time: 00:13:44 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] 18865444 / 33253104 = 0.5673 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 @ Sat, 27 Jun 2020 00:30:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.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 @ Sat, 27 Jun 2020 00:30:47: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:30:47: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:30:53: 1000000 INFO @ Sat, 27 Jun 2020 00:30:58: 2000000 INFO @ Sat, 27 Jun 2020 00:31:04: 3000000 INFO @ Sat, 27 Jun 2020 00:31:10: 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 @ Sat, 27 Jun 2020 00:31:15: 5000000 INFO @ Sat, 27 Jun 2020 00:31:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.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 @ Sat, 27 Jun 2020 00:31:17: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:31:17: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:31:21: 6000000 INFO @ Sat, 27 Jun 2020 00:31:23: 1000000 INFO @ Sat, 27 Jun 2020 00:31:27: 7000000 INFO @ Sat, 27 Jun 2020 00:31:29: 2000000 INFO @ Sat, 27 Jun 2020 00:31:32: 8000000 INFO @ Sat, 27 Jun 2020 00:31:34: 3000000 INFO @ Sat, 27 Jun 2020 00:31:38: 9000000 INFO @ Sat, 27 Jun 2020 00:31:40: 4000000 INFO @ Sat, 27 Jun 2020 00:31:43: 10000000 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 @ Sat, 27 Jun 2020 00:31:46: 5000000 INFO @ Sat, 27 Jun 2020 00:31:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.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 @ Sat, 27 Jun 2020 00:31:47: #1 read tag files... INFO @ Sat, 27 Jun 2020 00:31:47: #1 read treatment tags... INFO @ Sat, 27 Jun 2020 00:31:49: 11000000 INFO @ Sat, 27 Jun 2020 00:31:52: 6000000 INFO @ Sat, 27 Jun 2020 00:31:53: 1000000 INFO @ Sat, 27 Jun 2020 00:31:55: 12000000 INFO @ Sat, 27 Jun 2020 00:31:57: 7000000 INFO @ Sat, 27 Jun 2020 00:31:58: 2000000 INFO @ Sat, 27 Jun 2020 00:32:00: 13000000 INFO @ Sat, 27 Jun 2020 00:32:03: 8000000 INFO @ Sat, 27 Jun 2020 00:32:03: 3000000 INFO @ Sat, 27 Jun 2020 00:32:06: 14000000 INFO @ Sat, 27 Jun 2020 00:32:08: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:32:08: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:32:08: #1 total tags in treatment: 14387660 INFO @ Sat, 27 Jun 2020 00:32:08: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:32:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:32:08: #1 tags after filtering in treatment: 14387595 INFO @ Sat, 27 Jun 2020 00:32:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:32:08: #1 finished! INFO @ Sat, 27 Jun 2020 00:32:08: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:32:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:32:09: 4000000 INFO @ Sat, 27 Jun 2020 00:32:09: 9000000 INFO @ Sat, 27 Jun 2020 00:32:10: #2 number of paired peaks: 3059 INFO @ Sat, 27 Jun 2020 00:32:10: start model_add_line... INFO @ Sat, 27 Jun 2020 00:32:10: start X-correlation... INFO @ Sat, 27 Jun 2020 00:32:10: end of X-cor INFO @ Sat, 27 Jun 2020 00:32:10: #2 finished! INFO @ Sat, 27 Jun 2020 00:32:10: #2 predicted fragment length is 1 bps INFO @ Sat, 27 Jun 2020 00:32:10: #2 alternative fragment length(s) may be 1,12 bps INFO @ Sat, 27 Jun 2020 00:32:10: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05_model.r WARNING @ Sat, 27 Jun 2020 00:32:10: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:32:10: #2 You may need to consider one of the other alternative d(s): 1,12 WARNING @ Sat, 27 Jun 2020 00:32:10: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:32:10: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:32:10: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:32:14: 5000000 INFO @ Sat, 27 Jun 2020 00:32:15: 10000000 INFO @ Sat, 27 Jun 2020 00:32:20: 6000000 INFO @ Sat, 27 Jun 2020 00:32:21: 11000000 INFO @ Sat, 27 Jun 2020 00:32:25: 7000000 INFO @ Sat, 27 Jun 2020 00:32:27: 12000000 INFO @ Sat, 27 Jun 2020 00:32:31: 8000000 INFO @ Sat, 27 Jun 2020 00:32:33: 13000000 INFO @ Sat, 27 Jun 2020 00:32:36: 9000000 INFO @ Sat, 27 Jun 2020 00:32:38: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:32:39: 14000000 INFO @ Sat, 27 Jun 2020 00:32:42: 10000000 INFO @ Sat, 27 Jun 2020 00:32:42: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:32:42: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:32:42: #1 total tags in treatment: 14387660 INFO @ Sat, 27 Jun 2020 00:32:42: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:32:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:32:42: #1 tags after filtering in treatment: 14387595 INFO @ Sat, 27 Jun 2020 00:32:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:32:42: #1 finished! INFO @ Sat, 27 Jun 2020 00:32:42: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:32:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 27 Jun 2020 00:32:44: #2 number of paired peaks: 3059 INFO @ Sat, 27 Jun 2020 00:32:44: start model_add_line... INFO @ Sat, 27 Jun 2020 00:32:44: start X-correlation... INFO @ Sat, 27 Jun 2020 00:32:44: end of X-cor INFO @ Sat, 27 Jun 2020 00:32:44: #2 finished! INFO @ Sat, 27 Jun 2020 00:32:44: #2 predicted fragment length is 1 bps INFO @ Sat, 27 Jun 2020 00:32:44: #2 alternative fragment length(s) may be 1,12 bps INFO @ Sat, 27 Jun 2020 00:32:44: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10_model.r WARNING @ Sat, 27 Jun 2020 00:32:44: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:32:44: #2 You may need to consider one of the other alternative d(s): 1,12 WARNING @ Sat, 27 Jun 2020 00:32:44: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:32:44: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:32:44: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:32:47: 11000000 INFO @ Sat, 27 Jun 2020 00:32:51: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05_peaks.xls INFO @ Sat, 27 Jun 2020 00:32:51: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:32:51: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.05_summits.bed INFO @ Sat, 27 Jun 2020 00:32:51: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:32:53: 12000000 INFO @ Sat, 27 Jun 2020 00:32:58: 13000000 INFO @ Sat, 27 Jun 2020 00:33:04: 14000000 INFO @ Sat, 27 Jun 2020 00:33:06: #1 tag size is determined as 50 bps INFO @ Sat, 27 Jun 2020 00:33:06: #1 tag size = 50 INFO @ Sat, 27 Jun 2020 00:33:06: #1 total tags in treatment: 14387660 INFO @ Sat, 27 Jun 2020 00:33:06: #1 user defined the maximum tags... INFO @ Sat, 27 Jun 2020 00:33:06: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 27 Jun 2020 00:33:06: #1 tags after filtering in treatment: 14387595 INFO @ Sat, 27 Jun 2020 00:33:06: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 27 Jun 2020 00:33:06: #1 finished! INFO @ Sat, 27 Jun 2020 00:33:06: #2 Build Peak Model... INFO @ Sat, 27 Jun 2020 00:33:06: #2 looking for paired plus/minus strand peaks... BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 27 Jun 2020 00:33:08: #2 number of paired peaks: 3059 INFO @ Sat, 27 Jun 2020 00:33:08: start model_add_line... INFO @ Sat, 27 Jun 2020 00:33:08: start X-correlation... INFO @ Sat, 27 Jun 2020 00:33:08: end of X-cor INFO @ Sat, 27 Jun 2020 00:33:08: #2 finished! INFO @ Sat, 27 Jun 2020 00:33:08: #2 predicted fragment length is 1 bps INFO @ Sat, 27 Jun 2020 00:33:08: #2 alternative fragment length(s) may be 1,12 bps INFO @ Sat, 27 Jun 2020 00:33:08: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20_model.r WARNING @ Sat, 27 Jun 2020 00:33:08: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 27 Jun 2020 00:33:08: #2 You may need to consider one of the other alternative d(s): 1,12 WARNING @ Sat, 27 Jun 2020 00:33:08: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 27 Jun 2020 00:33:08: #3 Call peaks... INFO @ Sat, 27 Jun 2020 00:33:08: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 27 Jun 2020 00:33:12: #3 Call peaks for each chromosome... INFO @ Sat, 27 Jun 2020 00:33:26: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10_peaks.xls INFO @ Sat, 27 Jun 2020 00:33:26: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:33:26: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.10_summits.bed INFO @ Sat, 27 Jun 2020 00:33:26: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Sat, 27 Jun 2020 00:33:36: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Sat, 27 Jun 2020 00:33:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20_peaks.xls INFO @ Sat, 27 Jun 2020 00:33:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20_peaks.narrowPeak INFO @ Sat, 27 Jun 2020 00:33:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX495290/SRX495290.20_summits.bed INFO @ Sat, 27 Jun 2020 00:33:49: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling