Job ID = 10166272 SRX = SRX7723700 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: 00:12:46 32219639 reads; of these: 32219639 (100.00%) were unpaired; of these: 8450391 (26.23%) aligned 0 times 15584505 (48.37%) aligned exactly 1 time 8184743 (25.40%) aligned >1 times 73.77% overall alignment rate Time searching: 00:12:46 Overall time: 00:12:46 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] 7647097 / 23769248 = 0.3217 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 @ Thu, 08 Oct 2020 21:05:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.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 @ Thu, 08 Oct 2020 21:05:13: #1 read tag files... INFO @ Thu, 08 Oct 2020 21:05:13: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 21:05:19: 1000000 INFO @ Thu, 08 Oct 2020 21:05:25: 2000000 INFO @ Thu, 08 Oct 2020 21:05:30: 3000000 INFO @ Thu, 08 Oct 2020 21:05:35: 4000000 INFO @ Thu, 08 Oct 2020 21:05:41: 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 @ Thu, 08 Oct 2020 21:05:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.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 @ Thu, 08 Oct 2020 21:05:45: #1 read tag files... INFO @ Thu, 08 Oct 2020 21:05:45: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 21:05:46: 6000000 INFO @ Thu, 08 Oct 2020 21:05:51: 1000000 INFO @ Thu, 08 Oct 2020 21:05:52: 7000000 INFO @ Thu, 08 Oct 2020 21:05:57: 2000000 INFO @ Thu, 08 Oct 2020 21:05:57: 8000000 INFO @ Thu, 08 Oct 2020 21:06:03: 9000000 INFO @ Thu, 08 Oct 2020 21:06:03: 3000000 INFO @ Thu, 08 Oct 2020 21:06:08: 10000000 INFO @ Thu, 08 Oct 2020 21:06:09: 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 @ Thu, 08 Oct 2020 21:06:14: 11000000 INFO @ Thu, 08 Oct 2020 21:06:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.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 @ Thu, 08 Oct 2020 21:06:14: #1 read tag files... INFO @ Thu, 08 Oct 2020 21:06:14: #1 read treatment tags... INFO @ Thu, 08 Oct 2020 21:06:14: 5000000 INFO @ Thu, 08 Oct 2020 21:06:19: 12000000 INFO @ Thu, 08 Oct 2020 21:06:20: 1000000 INFO @ Thu, 08 Oct 2020 21:06:20: 6000000 INFO @ Thu, 08 Oct 2020 21:06:25: 2000000 INFO @ Thu, 08 Oct 2020 21:06:25: 13000000 INFO @ Thu, 08 Oct 2020 21:06:26: 7000000 INFO @ Thu, 08 Oct 2020 21:06:31: 3000000 INFO @ Thu, 08 Oct 2020 21:06:31: 14000000 INFO @ Thu, 08 Oct 2020 21:06:31: 8000000 INFO @ Thu, 08 Oct 2020 21:06:36: 4000000 INFO @ Thu, 08 Oct 2020 21:06:37: 15000000 INFO @ Thu, 08 Oct 2020 21:06:37: 9000000 INFO @ Thu, 08 Oct 2020 21:06:42: 5000000 INFO @ Thu, 08 Oct 2020 21:06:42: 10000000 INFO @ Thu, 08 Oct 2020 21:06:43: 16000000 INFO @ Thu, 08 Oct 2020 21:06:43: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 21:06:43: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 21:06:43: #1 total tags in treatment: 16122151 INFO @ Thu, 08 Oct 2020 21:06:43: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 21:06:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 21:06:44: #1 tags after filtering in treatment: 16122039 INFO @ Thu, 08 Oct 2020 21:06:44: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 21:06:44: #1 finished! INFO @ Thu, 08 Oct 2020 21:06:44: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 21:06:44: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 21:06:45: #2 number of paired peaks: 1492 INFO @ Thu, 08 Oct 2020 21:06:45: start model_add_line... INFO @ Thu, 08 Oct 2020 21:06:45: start X-correlation... INFO @ Thu, 08 Oct 2020 21:06:45: end of X-cor INFO @ Thu, 08 Oct 2020 21:06:45: #2 finished! INFO @ Thu, 08 Oct 2020 21:06:45: #2 predicted fragment length is 69 bps INFO @ Thu, 08 Oct 2020 21:06:45: #2 alternative fragment length(s) may be 4,69 bps INFO @ Thu, 08 Oct 2020 21:06:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05_model.r WARNING @ Thu, 08 Oct 2020 21:06:45: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 21:06:45: #2 You may need to consider one of the other alternative d(s): 4,69 WARNING @ Thu, 08 Oct 2020 21:06:45: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 21:06:45: #3 Call peaks... INFO @ Thu, 08 Oct 2020 21:06:45: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 21:06:47: 6000000 INFO @ Thu, 08 Oct 2020 21:06:48: 11000000 INFO @ Thu, 08 Oct 2020 21:06:53: 7000000 INFO @ Thu, 08 Oct 2020 21:06:53: 12000000 INFO @ Thu, 08 Oct 2020 21:06:58: 8000000 INFO @ Thu, 08 Oct 2020 21:06:59: 13000000 INFO @ Thu, 08 Oct 2020 21:07:04: 9000000 INFO @ Thu, 08 Oct 2020 21:07:05: 14000000 INFO @ Thu, 08 Oct 2020 21:07:09: 10000000 INFO @ Thu, 08 Oct 2020 21:07:10: 15000000 INFO @ Thu, 08 Oct 2020 21:07:14: 11000000 INFO @ Thu, 08 Oct 2020 21:07:16: 16000000 INFO @ Thu, 08 Oct 2020 21:07:17: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 21:07:17: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 21:07:17: #1 total tags in treatment: 16122151 INFO @ Thu, 08 Oct 2020 21:07:17: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 21:07:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 21:07:17: #1 tags after filtering in treatment: 16122039 INFO @ Thu, 08 Oct 2020 21:07:17: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 21:07:17: #1 finished! INFO @ Thu, 08 Oct 2020 21:07:17: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 21:07:17: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 21:07:18: #2 number of paired peaks: 1492 INFO @ Thu, 08 Oct 2020 21:07:18: start model_add_line... INFO @ Thu, 08 Oct 2020 21:07:19: start X-correlation... INFO @ Thu, 08 Oct 2020 21:07:19: end of X-cor INFO @ Thu, 08 Oct 2020 21:07:19: #2 finished! INFO @ Thu, 08 Oct 2020 21:07:19: #2 predicted fragment length is 69 bps INFO @ Thu, 08 Oct 2020 21:07:19: #2 alternative fragment length(s) may be 4,69 bps INFO @ Thu, 08 Oct 2020 21:07:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10_model.r WARNING @ Thu, 08 Oct 2020 21:07:19: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 21:07:19: #2 You may need to consider one of the other alternative d(s): 4,69 WARNING @ Thu, 08 Oct 2020 21:07:19: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 21:07:19: #3 Call peaks... INFO @ Thu, 08 Oct 2020 21:07:19: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 21:07:20: 12000000 INFO @ Thu, 08 Oct 2020 21:07:20: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 21:07:26: 13000000 INFO @ Thu, 08 Oct 2020 21:07:31: 14000000 INFO @ Thu, 08 Oct 2020 21:07:36: 15000000 INFO @ Thu, 08 Oct 2020 21:07:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05_peaks.xls INFO @ Thu, 08 Oct 2020 21:07:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 21:07:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.05_summits.bed INFO @ Thu, 08 Oct 2020 21:07:39: Done! BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (845 chroms): 2 millis pass2 - checking and writing primary data (3915 records, 4 fields): 27 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 21:07:42: 16000000 INFO @ Thu, 08 Oct 2020 21:07:43: #1 tag size is determined as 75 bps INFO @ Thu, 08 Oct 2020 21:07:43: #1 tag size = 75 INFO @ Thu, 08 Oct 2020 21:07:43: #1 total tags in treatment: 16122151 INFO @ Thu, 08 Oct 2020 21:07:43: #1 user defined the maximum tags... INFO @ Thu, 08 Oct 2020 21:07:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 08 Oct 2020 21:07:43: #1 tags after filtering in treatment: 16122039 INFO @ Thu, 08 Oct 2020 21:07:43: #1 Redundant rate of treatment: 0.00 INFO @ Thu, 08 Oct 2020 21:07:43: #1 finished! INFO @ Thu, 08 Oct 2020 21:07:43: #2 Build Peak Model... INFO @ Thu, 08 Oct 2020 21:07:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 08 Oct 2020 21:07:45: #2 number of paired peaks: 1492 INFO @ Thu, 08 Oct 2020 21:07:45: start model_add_line... INFO @ Thu, 08 Oct 2020 21:07:45: start X-correlation... INFO @ Thu, 08 Oct 2020 21:07:45: end of X-cor INFO @ Thu, 08 Oct 2020 21:07:45: #2 finished! INFO @ Thu, 08 Oct 2020 21:07:45: #2 predicted fragment length is 69 bps INFO @ Thu, 08 Oct 2020 21:07:45: #2 alternative fragment length(s) may be 4,69 bps INFO @ Thu, 08 Oct 2020 21:07:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20_model.r WARNING @ Thu, 08 Oct 2020 21:07:45: #2 Since the d (69) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 08 Oct 2020 21:07:45: #2 You may need to consider one of the other alternative d(s): 4,69 WARNING @ Thu, 08 Oct 2020 21:07:45: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 08 Oct 2020 21:07:45: #3 Call peaks... INFO @ Thu, 08 Oct 2020 21:07:45: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 08 Oct 2020 21:07:54: #3 Call peaks for each chromosome... INFO @ Thu, 08 Oct 2020 21:08:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10_peaks.xls INFO @ Thu, 08 Oct 2020 21:08:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 21:08:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.10_summits.bed INFO @ Thu, 08 Oct 2020 21:08:12: Done! pass1 - making usageList (750 chroms): 1 millis pass2 - checking and writing primary data (2454 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Thu, 08 Oct 2020 21:08:16: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Thu, 08 Oct 2020 21:08:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20_peaks.xls INFO @ Thu, 08 Oct 2020 21:08:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20_peaks.narrowPeak INFO @ Thu, 08 Oct 2020 21:08:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723700/SRX7723700.20_summits.bed INFO @ Thu, 08 Oct 2020 21:08:32: Done! pass1 - making usageList (610 chroms): 1 millis pass2 - checking and writing primary data (1766 records, 4 fields): 18 millis CompletedMACS2peakCalling