Job ID = 14167344 SRX = SRX7723719 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: 00:07:14 25811605 reads; of these: 25811605 (100.00%) were unpaired; of these: 9366475 (36.29%) aligned 0 times 12189125 (47.22%) aligned exactly 1 time 4256005 (16.49%) aligned >1 times 63.71% overall alignment rate Time searching: 00:07:14 Overall time: 00:07:14 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] 5760047 / 16445130 = 0.3503 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 @ Fri, 10 Dec 2021 12:06:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.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 @ Fri, 10 Dec 2021 12:06:47: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:06:47: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:06:52: 1000000 INFO @ Fri, 10 Dec 2021 12:06:57: 2000000 INFO @ Fri, 10 Dec 2021 12:07:02: 3000000 INFO @ Fri, 10 Dec 2021 12:07:07: 4000000 INFO @ Fri, 10 Dec 2021 12:07:12: 5000000 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 @ Fri, 10 Dec 2021 12:07:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.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 @ Fri, 10 Dec 2021 12:07:17: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:07:17: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:07:18: 6000000 INFO @ Fri, 10 Dec 2021 12:07:22: 1000000 INFO @ Fri, 10 Dec 2021 12:07:23: 7000000 INFO @ Fri, 10 Dec 2021 12:07:28: 2000000 INFO @ Fri, 10 Dec 2021 12:07:28: 8000000 INFO @ Fri, 10 Dec 2021 12:07:33: 3000000 INFO @ Fri, 10 Dec 2021 12:07:34: 9000000 INFO @ Fri, 10 Dec 2021 12:07:39: 4000000 INFO @ Fri, 10 Dec 2021 12:07:39: 10000000 INFO @ Fri, 10 Dec 2021 12:07:43: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:07:43: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:07:43: #1 total tags in treatment: 10685083 INFO @ Fri, 10 Dec 2021 12:07:43: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:07:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:07:44: #1 tags after filtering in treatment: 10684924 INFO @ Fri, 10 Dec 2021 12:07:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:07:44: #1 finished! INFO @ Fri, 10 Dec 2021 12:07:44: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:07:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:07:44: 5000000 INFO @ Fri, 10 Dec 2021 12:07:45: #2 number of paired peaks: 1154 INFO @ Fri, 10 Dec 2021 12:07:45: start model_add_line... INFO @ Fri, 10 Dec 2021 12:07:45: start X-correlation... INFO @ Fri, 10 Dec 2021 12:07:45: end of X-cor INFO @ Fri, 10 Dec 2021 12:07:45: #2 finished! INFO @ Fri, 10 Dec 2021 12:07:45: #2 predicted fragment length is 73 bps INFO @ Fri, 10 Dec 2021 12:07:45: #2 alternative fragment length(s) may be 4,73 bps INFO @ Fri, 10 Dec 2021 12:07:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05_model.r WARNING @ Fri, 10 Dec 2021 12:07:45: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:07:45: #2 You may need to consider one of the other alternative d(s): 4,73 WARNING @ Fri, 10 Dec 2021 12:07:45: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:07:45: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:07:45: #3 Pre-compute pvalue-qvalue table... 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 @ Fri, 10 Dec 2021 12:07:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.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 @ Fri, 10 Dec 2021 12:07:47: #1 read tag files... INFO @ Fri, 10 Dec 2021 12:07:47: #1 read treatment tags... INFO @ Fri, 10 Dec 2021 12:07:50: 6000000 INFO @ Fri, 10 Dec 2021 12:07:52: 1000000 INFO @ Fri, 10 Dec 2021 12:07:55: 7000000 INFO @ Fri, 10 Dec 2021 12:07:57: 2000000 INFO @ Fri, 10 Dec 2021 12:08:00: 8000000 INFO @ Fri, 10 Dec 2021 12:08:03: 3000000 INFO @ Fri, 10 Dec 2021 12:08:06: 9000000 INFO @ Fri, 10 Dec 2021 12:08:06: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:08:08: 4000000 INFO @ Fri, 10 Dec 2021 12:08:12: 10000000 INFO @ Fri, 10 Dec 2021 12:08:14: 5000000 INFO @ Fri, 10 Dec 2021 12:08:16: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:08:16: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:08:16: #1 total tags in treatment: 10685083 INFO @ Fri, 10 Dec 2021 12:08:16: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:08:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:08:16: #1 tags after filtering in treatment: 10684924 INFO @ Fri, 10 Dec 2021 12:08:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:08:16: #1 finished! INFO @ Fri, 10 Dec 2021 12:08:16: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:08:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:08:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05_peaks.xls INFO @ Fri, 10 Dec 2021 12:08:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:08:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.05_summits.bed INFO @ Fri, 10 Dec 2021 12:08:17: Done! INFO @ Fri, 10 Dec 2021 12:08:17: #2 number of paired peaks: 1154 INFO @ Fri, 10 Dec 2021 12:08:17: start model_add_line... INFO @ Fri, 10 Dec 2021 12:08:17: start X-correlation... INFO @ Fri, 10 Dec 2021 12:08:17: end of X-cor INFO @ Fri, 10 Dec 2021 12:08:17: #2 finished! INFO @ Fri, 10 Dec 2021 12:08:17: #2 predicted fragment length is 73 bps INFO @ Fri, 10 Dec 2021 12:08:17: #2 alternative fragment length(s) may be 4,73 bps INFO @ Fri, 10 Dec 2021 12:08:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10_model.r WARNING @ Fri, 10 Dec 2021 12:08:17: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:08:17: #2 You may need to consider one of the other alternative d(s): 4,73 WARNING @ Fri, 10 Dec 2021 12:08:17: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:08:17: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:08:17: #3 Pre-compute pvalue-qvalue table... pass1 - making usageList (687 chroms): 2 millis pass2 - checking and writing primary data (2433 records, 4 fields): 20 millis CompletedMACS2peakCalling INFO @ Fri, 10 Dec 2021 12:08:19: 6000000 INFO @ Fri, 10 Dec 2021 12:08:24: 7000000 INFO @ Fri, 10 Dec 2021 12:08:29: 8000000 INFO @ Fri, 10 Dec 2021 12:08:35: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 10 Dec 2021 12:08:38: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:08:40: 10000000 INFO @ Fri, 10 Dec 2021 12:08:44: #1 tag size is determined as 75 bps INFO @ Fri, 10 Dec 2021 12:08:44: #1 tag size = 75 INFO @ Fri, 10 Dec 2021 12:08:44: #1 total tags in treatment: 10685083 INFO @ Fri, 10 Dec 2021 12:08:44: #1 user defined the maximum tags... INFO @ Fri, 10 Dec 2021 12:08:44: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 10 Dec 2021 12:08:44: #1 tags after filtering in treatment: 10684924 INFO @ Fri, 10 Dec 2021 12:08:44: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 10 Dec 2021 12:08:44: #1 finished! INFO @ Fri, 10 Dec 2021 12:08:44: #2 Build Peak Model... INFO @ Fri, 10 Dec 2021 12:08:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 10 Dec 2021 12:08:45: #2 number of paired peaks: 1154 INFO @ Fri, 10 Dec 2021 12:08:45: start model_add_line... INFO @ Fri, 10 Dec 2021 12:08:45: start X-correlation... INFO @ Fri, 10 Dec 2021 12:08:45: end of X-cor INFO @ Fri, 10 Dec 2021 12:08:45: #2 finished! INFO @ Fri, 10 Dec 2021 12:08:45: #2 predicted fragment length is 73 bps INFO @ Fri, 10 Dec 2021 12:08:45: #2 alternative fragment length(s) may be 4,73 bps INFO @ Fri, 10 Dec 2021 12:08:45: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20_model.r WARNING @ Fri, 10 Dec 2021 12:08:45: #2 Since the d (73) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Fri, 10 Dec 2021 12:08:45: #2 You may need to consider one of the other alternative d(s): 4,73 WARNING @ Fri, 10 Dec 2021 12:08:45: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Fri, 10 Dec 2021 12:08:45: #3 Call peaks... INFO @ Fri, 10 Dec 2021 12:08:45: #3 Pre-compute pvalue-qvalue table... INFO @ Fri, 10 Dec 2021 12:08:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10_peaks.xls INFO @ Fri, 10 Dec 2021 12:08:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:08:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.10_summits.bed INFO @ Fri, 10 Dec 2021 12:08:49: Done! pass1 - making usageList (612 chroms): 1 millis pass2 - checking and writing primary data (1932 records, 4 fields): 18 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Fri, 10 Dec 2021 12:09:07: #3 Call peaks for each chromosome... INFO @ Fri, 10 Dec 2021 12:09:17: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20_peaks.xls INFO @ Fri, 10 Dec 2021 12:09:17: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20_peaks.narrowPeak INFO @ Fri, 10 Dec 2021 12:09:17: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7723719/SRX7723719.20_summits.bed INFO @ Fri, 10 Dec 2021 12:09:17: Done! pass1 - making usageList (526 chroms): 1 millis pass2 - checking and writing primary data (1401 records, 4 fields): 16 millis CompletedMACS2peakCalling