Job ID = 6626979 SRX = SRX7351010 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: 00:07:57 23400069 reads; of these: 23400069 (100.00%) were unpaired; of these: 730715 (3.12%) aligned 0 times 18020526 (77.01%) aligned exactly 1 time 4648828 (19.87%) aligned >1 times 96.88% overall alignment rate Time searching: 00:07:57 Overall time: 00:07:57 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] 3396404 / 22669354 = 0.1498 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 09:21:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.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 09:21:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:21:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:21:29: 1000000 INFO @ Tue, 14 Jul 2020 09:21:34: 2000000 INFO @ Tue, 14 Jul 2020 09:21:40: 3000000 INFO @ Tue, 14 Jul 2020 09:21:45: 4000000 INFO @ Tue, 14 Jul 2020 09:21:50: 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, 14 Jul 2020 09:21:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.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 09:21:54: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:21:54: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:21:56: 6000000 INFO @ Tue, 14 Jul 2020 09:22:00: 1000000 INFO @ Tue, 14 Jul 2020 09:22:01: 7000000 INFO @ Tue, 14 Jul 2020 09:22:06: 2000000 INFO @ Tue, 14 Jul 2020 09:22:07: 8000000 INFO @ Tue, 14 Jul 2020 09:22:11: 3000000 INFO @ Tue, 14 Jul 2020 09:22:13: 9000000 INFO @ Tue, 14 Jul 2020 09:22:17: 4000000 INFO @ Tue, 14 Jul 2020 09:22:18: 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 @ Tue, 14 Jul 2020 09:22:23: 5000000 INFO @ Tue, 14 Jul 2020 09:22:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.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 09:22:24: #1 read tag files... INFO @ Tue, 14 Jul 2020 09:22:24: #1 read treatment tags... INFO @ Tue, 14 Jul 2020 09:22:24: 11000000 INFO @ Tue, 14 Jul 2020 09:22:28: 6000000 INFO @ Tue, 14 Jul 2020 09:22:30: 12000000 INFO @ Tue, 14 Jul 2020 09:22:30: 1000000 INFO @ Tue, 14 Jul 2020 09:22:34: 7000000 INFO @ Tue, 14 Jul 2020 09:22:35: 13000000 INFO @ Tue, 14 Jul 2020 09:22:36: 2000000 INFO @ Tue, 14 Jul 2020 09:22:40: 8000000 INFO @ Tue, 14 Jul 2020 09:22:41: 14000000 INFO @ Tue, 14 Jul 2020 09:22:42: 3000000 INFO @ Tue, 14 Jul 2020 09:22:46: 9000000 INFO @ Tue, 14 Jul 2020 09:22:47: 15000000 INFO @ Tue, 14 Jul 2020 09:22:49: 4000000 INFO @ Tue, 14 Jul 2020 09:22:52: 10000000 INFO @ Tue, 14 Jul 2020 09:22:53: 16000000 INFO @ Tue, 14 Jul 2020 09:22:55: 5000000 INFO @ Tue, 14 Jul 2020 09:22:58: 11000000 INFO @ Tue, 14 Jul 2020 09:22:59: 17000000 INFO @ Tue, 14 Jul 2020 09:23:00: 6000000 INFO @ Tue, 14 Jul 2020 09:23:03: 12000000 INFO @ Tue, 14 Jul 2020 09:23:05: 18000000 INFO @ Tue, 14 Jul 2020 09:23:06: 7000000 INFO @ Tue, 14 Jul 2020 09:23:09: 13000000 INFO @ Tue, 14 Jul 2020 09:23:11: 19000000 INFO @ Tue, 14 Jul 2020 09:23:12: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 09:23:12: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 09:23:12: #1 total tags in treatment: 19272950 INFO @ Tue, 14 Jul 2020 09:23:12: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:23:12: #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 09:23:13: #1 tags after filtering in treatment: 19272796 INFO @ Tue, 14 Jul 2020 09:23:13: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:23:13: #1 finished! INFO @ Tue, 14 Jul 2020 09:23:13: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:23:13: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:23:13: 8000000 INFO @ Tue, 14 Jul 2020 09:23:14: #2 number of paired peaks: 1459 INFO @ Tue, 14 Jul 2020 09:23:14: start model_add_line... INFO @ Tue, 14 Jul 2020 09:23:14: start X-correlation... INFO @ Tue, 14 Jul 2020 09:23:14: end of X-cor INFO @ Tue, 14 Jul 2020 09:23:14: #2 finished! INFO @ Tue, 14 Jul 2020 09:23:14: #2 predicted fragment length is 103 bps INFO @ Tue, 14 Jul 2020 09:23:14: #2 alternative fragment length(s) may be 3,103 bps INFO @ Tue, 14 Jul 2020 09:23:14: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05_model.r WARNING @ Tue, 14 Jul 2020 09:23:14: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 09:23:14: #2 You may need to consider one of the other alternative d(s): 3,103 WARNING @ Tue, 14 Jul 2020 09:23:14: #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 09:23:14: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:23:14: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:23:17: 14000000 INFO @ Tue, 14 Jul 2020 09:23:19: 9000000 INFO @ Tue, 14 Jul 2020 09:23:24: 15000000 INFO @ Tue, 14 Jul 2020 09:23:25: 10000000 INFO @ Tue, 14 Jul 2020 09:23:30: 16000000 INFO @ Tue, 14 Jul 2020 09:23:31: 11000000 INFO @ Tue, 14 Jul 2020 09:23:36: 17000000 INFO @ Tue, 14 Jul 2020 09:23:37: 12000000 INFO @ Tue, 14 Jul 2020 09:23:42: 18000000 INFO @ Tue, 14 Jul 2020 09:23:42: 13000000 INFO @ Tue, 14 Jul 2020 09:23:48: 19000000 INFO @ Tue, 14 Jul 2020 09:23:48: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 14 Jul 2020 09:23:49: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 09:23:49: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 09:23:49: #1 total tags in treatment: 19272950 INFO @ Tue, 14 Jul 2020 09:23:49: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:23:49: #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 09:23:50: #1 tags after filtering in treatment: 19272796 INFO @ Tue, 14 Jul 2020 09:23:50: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:23:50: #1 finished! INFO @ Tue, 14 Jul 2020 09:23:50: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:23:50: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:23:51: #2 number of paired peaks: 1459 INFO @ Tue, 14 Jul 2020 09:23:51: start model_add_line... INFO @ Tue, 14 Jul 2020 09:23:51: start X-correlation... INFO @ Tue, 14 Jul 2020 09:23:51: end of X-cor INFO @ Tue, 14 Jul 2020 09:23:51: #2 finished! INFO @ Tue, 14 Jul 2020 09:23:51: #2 predicted fragment length is 103 bps INFO @ Tue, 14 Jul 2020 09:23:51: #2 alternative fragment length(s) may be 3,103 bps INFO @ Tue, 14 Jul 2020 09:23:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10_model.r WARNING @ Tue, 14 Jul 2020 09:23:51: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 09:23:51: #2 You may need to consider one of the other alternative d(s): 3,103 WARNING @ Tue, 14 Jul 2020 09:23:51: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 14 Jul 2020 09:23:51: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:23:51: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 14 Jul 2020 09:23:53: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:23:54: 15000000 INFO @ Tue, 14 Jul 2020 09:23:59: 16000000 INFO @ Tue, 14 Jul 2020 09:24:05: 17000000 INFO @ Tue, 14 Jul 2020 09:24:10: 18000000 INFO @ Tue, 14 Jul 2020 09:24:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05_peaks.xls INFO @ Tue, 14 Jul 2020 09:24:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:24:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.05_summits.bed INFO @ Tue, 14 Jul 2020 09:24:13: Done! pass1 - making usageList (317 chroms): 2 millis pass2 - checking and writing primary data (10133 records, 4 fields): 17 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:24:16: 19000000 INFO @ Tue, 14 Jul 2020 09:24:18: #1 tag size is determined as 75 bps INFO @ Tue, 14 Jul 2020 09:24:18: #1 tag size = 75 INFO @ Tue, 14 Jul 2020 09:24:18: #1 total tags in treatment: 19272950 INFO @ Tue, 14 Jul 2020 09:24:18: #1 user defined the maximum tags... INFO @ Tue, 14 Jul 2020 09:24:18: #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 09:24:18: #1 tags after filtering in treatment: 19272796 INFO @ Tue, 14 Jul 2020 09:24:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 14 Jul 2020 09:24:18: #1 finished! INFO @ Tue, 14 Jul 2020 09:24:18: #2 Build Peak Model... INFO @ Tue, 14 Jul 2020 09:24:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 14 Jul 2020 09:24:19: #2 number of paired peaks: 1459 INFO @ Tue, 14 Jul 2020 09:24:19: start model_add_line... INFO @ Tue, 14 Jul 2020 09:24:20: start X-correlation... INFO @ Tue, 14 Jul 2020 09:24:20: end of X-cor INFO @ Tue, 14 Jul 2020 09:24:20: #2 finished! INFO @ Tue, 14 Jul 2020 09:24:20: #2 predicted fragment length is 103 bps INFO @ Tue, 14 Jul 2020 09:24:20: #2 alternative fragment length(s) may be 3,103 bps INFO @ Tue, 14 Jul 2020 09:24:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20_model.r WARNING @ Tue, 14 Jul 2020 09:24:20: #2 Since the d (103) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 14 Jul 2020 09:24:20: #2 You may need to consider one of the other alternative d(s): 3,103 WARNING @ Tue, 14 Jul 2020 09:24:20: #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 09:24:20: #3 Call peaks... INFO @ Tue, 14 Jul 2020 09:24:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 14 Jul 2020 09:24:31: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:24:50: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10_peaks.xls INFO @ Tue, 14 Jul 2020 09:24:50: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:24:50: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.10_summits.bed INFO @ Tue, 14 Jul 2020 09:24:50: Done! pass1 - making usageList (235 chroms): 1 millis pass2 - checking and writing primary data (5413 records, 4 fields): 12 millis CompletedMACS2peakCalling INFO @ Tue, 14 Jul 2020 09:24:59: #3 Call peaks for each chromosome... INFO @ Tue, 14 Jul 2020 09:25:18: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20_peaks.xls INFO @ Tue, 14 Jul 2020 09:25:18: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20_peaks.narrowPeak INFO @ Tue, 14 Jul 2020 09:25:18: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7351010/SRX7351010.20_summits.bed INFO @ Tue, 14 Jul 2020 09:25:18: Done! pass1 - making usageList (171 chroms): 1 millis pass2 - checking and writing primary data (1502 records, 4 fields): 7 millis CompletedMACS2peakCalling