Job ID = 12265105 SRX = SRX2661686 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: 00:06:48 24038986 reads; of these: 24038986 (100.00%) were unpaired; of these: 1499140 (6.24%) aligned 0 times 19363590 (80.55%) aligned exactly 1 time 3176256 (13.21%) aligned >1 times 93.76% overall alignment rate Time searching: 00:06:48 Overall time: 00:06:48 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] 10816773 / 22539846 = 0.4799 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:20:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.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, 03 Apr 2021 06:20:15: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:20:15: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:20:26: 1000000 INFO @ Sat, 03 Apr 2021 06:20:36: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:20:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.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, 03 Apr 2021 06:20:44: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:20:44: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:20:47: 3000000 INFO @ Sat, 03 Apr 2021 06:20:54: 1000000 INFO @ Sat, 03 Apr 2021 06:20:58: 4000000 INFO @ Sat, 03 Apr 2021 06:21:03: 2000000 INFO @ Sat, 03 Apr 2021 06:21:09: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 03 Apr 2021 06:21:13: 3000000 INFO @ Sat, 03 Apr 2021 06:21:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.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, 03 Apr 2021 06:21:14: #1 read tag files... INFO @ Sat, 03 Apr 2021 06:21:14: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 06:21:19: 6000000 INFO @ Sat, 03 Apr 2021 06:21:22: 4000000 INFO @ Sat, 03 Apr 2021 06:21:24: 1000000 INFO @ Sat, 03 Apr 2021 06:21:30: 7000000 INFO @ Sat, 03 Apr 2021 06:21:32: 5000000 INFO @ Sat, 03 Apr 2021 06:21:33: 2000000 INFO @ Sat, 03 Apr 2021 06:21:41: 8000000 INFO @ Sat, 03 Apr 2021 06:21:41: 6000000 INFO @ Sat, 03 Apr 2021 06:21:42: 3000000 INFO @ Sat, 03 Apr 2021 06:21:50: 7000000 INFO @ Sat, 03 Apr 2021 06:21:51: 9000000 INFO @ Sat, 03 Apr 2021 06:21:52: 4000000 INFO @ Sat, 03 Apr 2021 06:21:59: 8000000 INFO @ Sat, 03 Apr 2021 06:22:01: 5000000 INFO @ Sat, 03 Apr 2021 06:22:01: 10000000 INFO @ Sat, 03 Apr 2021 06:22:08: 9000000 INFO @ Sat, 03 Apr 2021 06:22:10: 6000000 INFO @ Sat, 03 Apr 2021 06:22:11: 11000000 INFO @ Sat, 03 Apr 2021 06:22:18: 10000000 INFO @ Sat, 03 Apr 2021 06:22:19: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:22:19: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:22:19: #1 total tags in treatment: 11723073 INFO @ Sat, 03 Apr 2021 06:22:19: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:22:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:22:19: #1 tags after filtering in treatment: 11723071 INFO @ Sat, 03 Apr 2021 06:22:19: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:22:19: #1 finished! INFO @ Sat, 03 Apr 2021 06:22:19: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:22:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:22:20: 7000000 INFO @ Sat, 03 Apr 2021 06:22:21: #2 number of paired peaks: 1704 INFO @ Sat, 03 Apr 2021 06:22:21: start model_add_line... INFO @ Sat, 03 Apr 2021 06:22:21: start X-correlation... INFO @ Sat, 03 Apr 2021 06:22:21: end of X-cor INFO @ Sat, 03 Apr 2021 06:22:21: #2 finished! INFO @ Sat, 03 Apr 2021 06:22:21: #2 predicted fragment length is 70 bps INFO @ Sat, 03 Apr 2021 06:22:21: #2 alternative fragment length(s) may be 70 bps INFO @ Sat, 03 Apr 2021 06:22:21: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05_model.r WARNING @ Sat, 03 Apr 2021 06:22:21: #2 Since the d (70) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:22:21: #2 You may need to consider one of the other alternative d(s): 70 WARNING @ Sat, 03 Apr 2021 06:22:21: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:22:21: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:22:21: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:22:28: 11000000 INFO @ Sat, 03 Apr 2021 06:22:29: 8000000 INFO @ Sat, 03 Apr 2021 06:22:36: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:22:36: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:22:36: #1 total tags in treatment: 11723073 INFO @ Sat, 03 Apr 2021 06:22:36: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:22:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:22:36: #1 tags after filtering in treatment: 11723071 INFO @ Sat, 03 Apr 2021 06:22:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:22:36: #1 finished! INFO @ Sat, 03 Apr 2021 06:22:36: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:22:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:22:38: #2 number of paired peaks: 1704 INFO @ Sat, 03 Apr 2021 06:22:38: start model_add_line... INFO @ Sat, 03 Apr 2021 06:22:38: start X-correlation... INFO @ Sat, 03 Apr 2021 06:22:38: end of X-cor INFO @ Sat, 03 Apr 2021 06:22:38: #2 finished! INFO @ Sat, 03 Apr 2021 06:22:38: #2 predicted fragment length is 70 bps INFO @ Sat, 03 Apr 2021 06:22:38: #2 alternative fragment length(s) may be 70 bps INFO @ Sat, 03 Apr 2021 06:22:38: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10_model.r WARNING @ Sat, 03 Apr 2021 06:22:38: #2 Since the d (70) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:22:38: #2 You may need to consider one of the other alternative d(s): 70 WARNING @ Sat, 03 Apr 2021 06:22:38: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:22:38: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:22:38: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:22:38: 9000000 INFO @ Sat, 03 Apr 2021 06:22:47: 10000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 06:22:55: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:22:56: 11000000 INFO @ Sat, 03 Apr 2021 06:23:04: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 06:23:04: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 06:23:04: #1 total tags in treatment: 11723073 INFO @ Sat, 03 Apr 2021 06:23:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 06:23:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 03 Apr 2021 06:23:05: #1 tags after filtering in treatment: 11723071 INFO @ Sat, 03 Apr 2021 06:23:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 06:23:05: #1 finished! INFO @ Sat, 03 Apr 2021 06:23:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 06:23:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 06:23:06: #2 number of paired peaks: 1704 INFO @ Sat, 03 Apr 2021 06:23:06: start model_add_line... INFO @ Sat, 03 Apr 2021 06:23:06: start X-correlation... INFO @ Sat, 03 Apr 2021 06:23:06: end of X-cor INFO @ Sat, 03 Apr 2021 06:23:06: #2 finished! INFO @ Sat, 03 Apr 2021 06:23:06: #2 predicted fragment length is 70 bps INFO @ Sat, 03 Apr 2021 06:23:06: #2 alternative fragment length(s) may be 70 bps INFO @ Sat, 03 Apr 2021 06:23:06: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20_model.r WARNING @ Sat, 03 Apr 2021 06:23:06: #2 Since the d (70) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 06:23:06: #2 You may need to consider one of the other alternative d(s): 70 WARNING @ Sat, 03 Apr 2021 06:23:06: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 06:23:06: #3 Call peaks... INFO @ Sat, 03 Apr 2021 06:23:06: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 06:23:11: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:23:12: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05_peaks.xls INFO @ Sat, 03 Apr 2021 06:23:12: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:23:12: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.05_summits.bed INFO @ Sat, 03 Apr 2021 06:23:12: Done! pass1 - making usageList (342 chroms): 4 millis pass2 - checking and writing primary data (18834 records, 4 fields): 39 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 06:23:29: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10_peaks.xls INFO @ Sat, 03 Apr 2021 06:23:29: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:23:29: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.10_summits.bed INFO @ Sat, 03 Apr 2021 06:23:29: Done! pass1 - making usageList (253 chroms): 7 millis pass2 - checking and writing primary data (11285 records, 4 fields): 45 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 06:23:39: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 06:23:56: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20_peaks.xls INFO @ Sat, 03 Apr 2021 06:23:56: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 06:23:56: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2661686/SRX2661686.20_summits.bed INFO @ Sat, 03 Apr 2021 06:23:56: Done! pass1 - making usageList (158 chroms): 3 millis pass2 - checking and writing primary data (3760 records, 4 fields): 15 millis CompletedMACS2peakCalling