Job ID = 14170952 SRX = SRX9720884 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: 00:04:08 12540682 reads; of these: 12540682 (100.00%) were unpaired; of these: 739225 (5.89%) aligned 0 times 7882310 (62.85%) aligned exactly 1 time 3919147 (31.25%) aligned >1 times 94.11% overall alignment rate Time searching: 00:04:08 Overall time: 00:04:08 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 8 files... [bam_rmdupse_core] 1480613 / 11801457 = 0.1255 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:11:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.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, 11 Dec 2021 09:11:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:11:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:11:38: 1000000 INFO @ Sat, 11 Dec 2021 09:11:43: 2000000 INFO @ Sat, 11 Dec 2021 09:11:49: 3000000 INFO @ Sat, 11 Dec 2021 09:11:55: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:12:00: 5000000 INFO @ Sat, 11 Dec 2021 09:12:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.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, 11 Dec 2021 09:12:02: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:02: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:12:06: 6000000 INFO @ Sat, 11 Dec 2021 09:12:08: 1000000 INFO @ Sat, 11 Dec 2021 09:12:11: 7000000 INFO @ Sat, 11 Dec 2021 09:12:14: 2000000 INFO @ Sat, 11 Dec 2021 09:12:17: 8000000 INFO @ Sat, 11 Dec 2021 09:12:20: 3000000 INFO @ Sat, 11 Dec 2021 09:12:24: 9000000 INFO @ Sat, 11 Dec 2021 09:12:26: 4000000 INFO @ Sat, 11 Dec 2021 09:12:29: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 11 Dec 2021 09:12:31: 5000000 INFO @ Sat, 11 Dec 2021 09:12:32: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:12:32: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:12:32: #1 total tags in treatment: 10320844 INFO @ Sat, 11 Dec 2021 09:12:32: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:12:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:12:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.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, 11 Dec 2021 09:12:32: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:12:32: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:12:32: #1 tags after filtering in treatment: 10320739 INFO @ Sat, 11 Dec 2021 09:12:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:12:32: #1 finished! INFO @ Sat, 11 Dec 2021 09:12:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:12:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:12:33: #2 number of paired peaks: 1506 INFO @ Sat, 11 Dec 2021 09:12:33: start model_add_line... INFO @ Sat, 11 Dec 2021 09:12:33: start X-correlation... INFO @ Sat, 11 Dec 2021 09:12:33: end of X-cor INFO @ Sat, 11 Dec 2021 09:12:33: #2 finished! INFO @ Sat, 11 Dec 2021 09:12:33: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:12:33: #2 alternative fragment length(s) may be 3,52,597 bps INFO @ Sat, 11 Dec 2021 09:12:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05_model.r WARNING @ Sat, 11 Dec 2021 09:12:33: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:12:33: #2 You may need to consider one of the other alternative d(s): 3,52,597 WARNING @ Sat, 11 Dec 2021 09:12:33: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:12:33: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:12:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:12:37: 6000000 INFO @ Sat, 11 Dec 2021 09:12:38: 1000000 INFO @ Sat, 11 Dec 2021 09:12:43: 7000000 INFO @ Sat, 11 Dec 2021 09:12:44: 2000000 INFO @ Sat, 11 Dec 2021 09:12:49: 8000000 INFO @ Sat, 11 Dec 2021 09:12:50: 3000000 INFO @ Sat, 11 Dec 2021 09:12:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:12:55: 9000000 INFO @ Sat, 11 Dec 2021 09:12:56: 4000000 INFO @ Sat, 11 Dec 2021 09:13:01: 10000000 INFO @ Sat, 11 Dec 2021 09:13:01: 5000000 INFO @ Sat, 11 Dec 2021 09:13:03: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:03: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:03: #1 total tags in treatment: 10320844 INFO @ Sat, 11 Dec 2021 09:13:03: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:13:04: #1 tags after filtering in treatment: 10320739 INFO @ Sat, 11 Dec 2021 09:13:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:04: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:04: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.05_summits.bed INFO @ Sat, 11 Dec 2021 09:13:04: Done! INFO @ Sat, 11 Dec 2021 09:13:05: #2 number of paired peaks: 1506 INFO @ Sat, 11 Dec 2021 09:13:05: start model_add_line... pass1 - making usageList (599 chroms): 3 millis pass2 - checking and writing primary data (2686 records, 4 fields): 65 millis INFO @ Sat, 11 Dec 2021 09:13:05: start X-correlation... CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 09:13:05: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:05: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:05: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:13:05: #2 alternative fragment length(s) may be 3,52,597 bps INFO @ Sat, 11 Dec 2021 09:13:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10_model.r WARNING @ Sat, 11 Dec 2021 09:13:05: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:13:05: #2 You may need to consider one of the other alternative d(s): 3,52,597 WARNING @ Sat, 11 Dec 2021 09:13:05: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:13:05: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:07: 6000000 INFO @ Sat, 11 Dec 2021 09:13:12: 7000000 INFO @ Sat, 11 Dec 2021 09:13:18: 8000000 INFO @ Sat, 11 Dec 2021 09:13:24: 9000000 INFO @ Sat, 11 Dec 2021 09:13:25: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:13:30: 10000000 INFO @ Sat, 11 Dec 2021 09:13:32: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 09:13:32: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 09:13:32: #1 total tags in treatment: 10320844 INFO @ Sat, 11 Dec 2021 09:13:32: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:13:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 11 Dec 2021 09:13:33: #1 tags after filtering in treatment: 10320739 INFO @ Sat, 11 Dec 2021 09:13:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:13:33: #1 finished! INFO @ Sat, 11 Dec 2021 09:13:33: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:13:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:13:33: #2 number of paired peaks: 1506 INFO @ Sat, 11 Dec 2021 09:13:33: start model_add_line... INFO @ Sat, 11 Dec 2021 09:13:34: start X-correlation... INFO @ Sat, 11 Dec 2021 09:13:34: end of X-cor INFO @ Sat, 11 Dec 2021 09:13:34: #2 finished! INFO @ Sat, 11 Dec 2021 09:13:34: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:13:34: #2 alternative fragment length(s) may be 3,52,597 bps INFO @ Sat, 11 Dec 2021 09:13:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20_model.r WARNING @ Sat, 11 Dec 2021 09:13:34: #2 Since the d (52) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 09:13:34: #2 You may need to consider one of the other alternative d(s): 3,52,597 WARNING @ Sat, 11 Dec 2021 09:13:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 11 Dec 2021 09:13:34: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:13:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:13:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:13:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:13:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.10_summits.bed INFO @ Sat, 11 Dec 2021 09:13:35: Done! pass1 - making usageList (518 chroms): 2 millis pass2 - checking and writing primary data (1851 records, 4 fields): 45 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 09:13:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:14:03: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:14:03: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:14:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9720884/SRX9720884.20_summits.bed INFO @ Sat, 11 Dec 2021 09:14:04: Done! pass1 - making usageList (321 chroms): 1 millis pass2 - checking and writing primary data (706 records, 4 fields): 21 millis CompletedMACS2peakCalling BigWig に変換しました。