Job ID = 14171133 SRX = SRX10000641 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: 00:01:22 12302524 reads; of these: 12302524 (100.00%) were unpaired; of these: 11453965 (93.10%) aligned 0 times 549411 (4.47%) aligned exactly 1 time 299148 (2.43%) aligned >1 times 6.90% overall alignment rate Time searching: 00:01:22 Overall time: 00:01:22 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_rmdupse_core] 175799 / 848559 = 0.2072 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 09:44:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.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 09:44:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:44:44: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:44:49: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:44:49: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:44:49: #1 total tags in treatment: 672760 INFO @ Sat, 11 Dec 2021 09:44:49: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:44:49: #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 09:44:50: #1 tags after filtering in treatment: 672275 INFO @ Sat, 11 Dec 2021 09:44:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:44:50: #1 finished! INFO @ Sat, 11 Dec 2021 09:44:50: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:44:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:44:50: #2 number of paired peaks: 2165 INFO @ Sat, 11 Dec 2021 09:44:50: start model_add_line... INFO @ Sat, 11 Dec 2021 09:44:50: start X-correlation... INFO @ Sat, 11 Dec 2021 09:44:50: end of X-cor INFO @ Sat, 11 Dec 2021 09:44:50: #2 finished! INFO @ Sat, 11 Dec 2021 09:44:50: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:44:50: #2 alternative fragment length(s) may be 52,132,186,259,280,393,525,594,598 bps INFO @ Sat, 11 Dec 2021 09:44:50: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05_model.r WARNING @ Sat, 11 Dec 2021 09:44:50: #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 09:44:50: #2 You may need to consider one of the other alternative d(s): 52,132,186,259,280,393,525,594,598 WARNING @ Sat, 11 Dec 2021 09:44:50: #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 09:44:50: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:44:50: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:44:52: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:44:53: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05_peaks.xls INFO @ Sat, 11 Dec 2021 09:44:53: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:44:53: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.05_summits.bed INFO @ Sat, 11 Dec 2021 09:44:53: Done! pass1 - making usageList (124 chroms): 1 millis pass2 - checking and writing primary data (403 records, 4 fields): 91 millis CompletedMACS2peakCalling 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 09:45:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.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 09:45:14: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:45:14: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 09:45:18: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:45:18: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:45:18: #1 total tags in treatment: 672760 INFO @ Sat, 11 Dec 2021 09:45:18: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:45:18: #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 09:45:18: #1 tags after filtering in treatment: 672275 INFO @ Sat, 11 Dec 2021 09:45:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:45:18: #1 finished! INFO @ Sat, 11 Dec 2021 09:45:18: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:45:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:45:18: #2 number of paired peaks: 2165 INFO @ Sat, 11 Dec 2021 09:45:18: start model_add_line... INFO @ Sat, 11 Dec 2021 09:45:18: start X-correlation... INFO @ Sat, 11 Dec 2021 09:45:18: end of X-cor INFO @ Sat, 11 Dec 2021 09:45:18: #2 finished! INFO @ Sat, 11 Dec 2021 09:45:18: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:45:18: #2 alternative fragment length(s) may be 52,132,186,259,280,393,525,594,598 bps INFO @ Sat, 11 Dec 2021 09:45:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10_model.r WARNING @ Sat, 11 Dec 2021 09:45:18: #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 09:45:18: #2 You may need to consider one of the other alternative d(s): 52,132,186,259,280,393,525,594,598 WARNING @ Sat, 11 Dec 2021 09:45:18: #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 09:45:18: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:45:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:45:20: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:45:21: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10_peaks.xls INFO @ Sat, 11 Dec 2021 09:45:21: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:45:21: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.10_summits.bed INFO @ Sat, 11 Dec 2021 09:45:21: Done! pass1 - making usageList (53 chroms): 1 millis pass2 - checking and writing primary data (202 records, 4 fields): 4 millis CompletedMACS2peakCalling 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 09:45:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.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 09:45:44: #1 read tag files... INFO @ Sat, 11 Dec 2021 09:45:44: #1 read treatment tags... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 09:45:50: #1 tag size is determined as 51 bps INFO @ Sat, 11 Dec 2021 09:45:50: #1 tag size = 51 INFO @ Sat, 11 Dec 2021 09:45:50: #1 total tags in treatment: 672760 INFO @ Sat, 11 Dec 2021 09:45:50: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 09:45:50: #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 09:45:50: #1 tags after filtering in treatment: 672275 INFO @ Sat, 11 Dec 2021 09:45:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 09:45:50: #1 finished! INFO @ Sat, 11 Dec 2021 09:45:50: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 09:45:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 09:45:51: #2 number of paired peaks: 2165 INFO @ Sat, 11 Dec 2021 09:45:51: start model_add_line... INFO @ Sat, 11 Dec 2021 09:45:51: start X-correlation... INFO @ Sat, 11 Dec 2021 09:45:51: end of X-cor INFO @ Sat, 11 Dec 2021 09:45:51: #2 finished! INFO @ Sat, 11 Dec 2021 09:45:51: #2 predicted fragment length is 52 bps INFO @ Sat, 11 Dec 2021 09:45:51: #2 alternative fragment length(s) may be 52,132,186,259,280,393,525,594,598 bps INFO @ Sat, 11 Dec 2021 09:45:51: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20_model.r WARNING @ Sat, 11 Dec 2021 09:45:51: #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 09:45:51: #2 You may need to consider one of the other alternative d(s): 52,132,186,259,280,393,525,594,598 WARNING @ Sat, 11 Dec 2021 09:45:51: #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 09:45:51: #3 Call peaks... INFO @ Sat, 11 Dec 2021 09:45:51: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 09:45:53: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 09:45:54: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20_peaks.xls INFO @ Sat, 11 Dec 2021 09:45:54: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 09:45:54: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX10000641/SRX10000641.20_summits.bed INFO @ Sat, 11 Dec 2021 09:45:54: Done! pass1 - making usageList (41 chroms): 1 millis pass2 - checking and writing primary data (122 records, 4 fields): 2 millis CompletedMACS2peakCalling