Job ID = 14171726 SRX = SRX9986133 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: 00:04:01 14786455 reads; of these: 14786455 (100.00%) were unpaired; of these: 808167 (5.47%) aligned 0 times 9666560 (65.37%) aligned exactly 1 time 4311728 (29.16%) aligned >1 times 94.53% overall alignment rate Time searching: 00:04:01 Overall time: 00:04:01 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] 1738661 / 13978288 = 0.1244 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 12:44:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.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 12:44:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:44:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:44:21: 1000000 INFO @ Sat, 11 Dec 2021 12:44:27: 2000000 INFO @ Sat, 11 Dec 2021 12:44:33: 3000000 INFO @ Sat, 11 Dec 2021 12:44:39: 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 12:44:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.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 12:44:45: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:44:45: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:44:45: 5000000 INFO @ Sat, 11 Dec 2021 12:44:50: 1000000 INFO @ Sat, 11 Dec 2021 12:44:52: 6000000 INFO @ Sat, 11 Dec 2021 12:44:56: 2000000 INFO @ Sat, 11 Dec 2021 12:44:58: 7000000 INFO @ Sat, 11 Dec 2021 12:45:02: 3000000 INFO @ Sat, 11 Dec 2021 12:45:04: 8000000 INFO @ Sat, 11 Dec 2021 12:45:08: 4000000 INFO @ Sat, 11 Dec 2021 12:45:11: 9000000 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 12:45:14: 5000000 INFO @ Sat, 11 Dec 2021 12:45:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.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 12:45:15: #1 read tag files... INFO @ Sat, 11 Dec 2021 12:45:15: #1 read treatment tags... INFO @ Sat, 11 Dec 2021 12:45:17: 10000000 INFO @ Sat, 11 Dec 2021 12:45:19: 6000000 INFO @ Sat, 11 Dec 2021 12:45:21: 1000000 INFO @ Sat, 11 Dec 2021 12:45:23: 11000000 INFO @ Sat, 11 Dec 2021 12:45:25: 7000000 INFO @ Sat, 11 Dec 2021 12:45:27: 2000000 INFO @ Sat, 11 Dec 2021 12:45:30: 12000000 INFO @ Sat, 11 Dec 2021 12:45:31: 8000000 INFO @ Sat, 11 Dec 2021 12:45:32: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:45:32: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:45:32: #1 total tags in treatment: 12239627 INFO @ Sat, 11 Dec 2021 12:45:32: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:45:32: #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 12:45:32: #1 tags after filtering in treatment: 12239538 INFO @ Sat, 11 Dec 2021 12:45:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:45:32: #1 finished! INFO @ Sat, 11 Dec 2021 12:45:32: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:45:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:45:32: 3000000 INFO @ Sat, 11 Dec 2021 12:45:33: #2 number of paired peaks: 1067 INFO @ Sat, 11 Dec 2021 12:45:33: start model_add_line... INFO @ Sat, 11 Dec 2021 12:45:33: start X-correlation... INFO @ Sat, 11 Dec 2021 12:45:33: end of X-cor INFO @ Sat, 11 Dec 2021 12:45:33: #2 finished! INFO @ Sat, 11 Dec 2021 12:45:33: #2 predicted fragment length is 49 bps INFO @ Sat, 11 Dec 2021 12:45:33: #2 alternative fragment length(s) may be 3,49,581 bps INFO @ Sat, 11 Dec 2021 12:45:33: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05_model.r WARNING @ Sat, 11 Dec 2021 12:45:33: #2 Since the d (49) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 12:45:33: #2 You may need to consider one of the other alternative d(s): 3,49,581 WARNING @ Sat, 11 Dec 2021 12:45:33: #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 12:45:33: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:45:33: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:45:37: 9000000 INFO @ Sat, 11 Dec 2021 12:45:38: 4000000 INFO @ Sat, 11 Dec 2021 12:45:42: 10000000 INFO @ Sat, 11 Dec 2021 12:45:44: 5000000 INFO @ Sat, 11 Dec 2021 12:45:48: 11000000 INFO @ Sat, 11 Dec 2021 12:45:49: 6000000 INFO @ Sat, 11 Dec 2021 12:45:54: 12000000 INFO @ Sat, 11 Dec 2021 12:45:55: 7000000 INFO @ Sat, 11 Dec 2021 12:45:56: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:45:56: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:45:56: #1 total tags in treatment: 12239627 INFO @ Sat, 11 Dec 2021 12:45:56: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:45:56: #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 12:45:56: #1 tags after filtering in treatment: 12239538 INFO @ Sat, 11 Dec 2021 12:45:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:45:56: #1 finished! INFO @ Sat, 11 Dec 2021 12:45:56: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:45:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:45:57: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:45:57: #2 number of paired peaks: 1067 INFO @ Sat, 11 Dec 2021 12:45:57: start model_add_line... INFO @ Sat, 11 Dec 2021 12:45:57: start X-correlation... INFO @ Sat, 11 Dec 2021 12:45:57: end of X-cor INFO @ Sat, 11 Dec 2021 12:45:57: #2 finished! INFO @ Sat, 11 Dec 2021 12:45:57: #2 predicted fragment length is 49 bps INFO @ Sat, 11 Dec 2021 12:45:57: #2 alternative fragment length(s) may be 3,49,581 bps INFO @ Sat, 11 Dec 2021 12:45:57: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10_model.r WARNING @ Sat, 11 Dec 2021 12:45:57: #2 Since the d (49) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 12:45:57: #2 You may need to consider one of the other alternative d(s): 3,49,581 WARNING @ Sat, 11 Dec 2021 12:45:57: #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 12:45:57: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:45:57: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:46:00: 8000000 INFO @ Sat, 11 Dec 2021 12:46:05: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 11 Dec 2021 12:46:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05_peaks.xls INFO @ Sat, 11 Dec 2021 12:46:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:46:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.05_summits.bed INFO @ Sat, 11 Dec 2021 12:46:08: Done! pass1 - making usageList (606 chroms): 1 millis pass2 - checking and writing primary data (2663 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 11 Dec 2021 12:46:11: 10000000 INFO @ Sat, 11 Dec 2021 12:46:16: 11000000 INFO @ Sat, 11 Dec 2021 12:46:21: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:46:21: 12000000 INFO @ Sat, 11 Dec 2021 12:46:22: #1 tag size is determined as 50 bps INFO @ Sat, 11 Dec 2021 12:46:22: #1 tag size = 50 INFO @ Sat, 11 Dec 2021 12:46:22: #1 total tags in treatment: 12239627 INFO @ Sat, 11 Dec 2021 12:46:22: #1 user defined the maximum tags... INFO @ Sat, 11 Dec 2021 12:46:22: #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 12:46:23: #1 tags after filtering in treatment: 12239538 INFO @ Sat, 11 Dec 2021 12:46:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 11 Dec 2021 12:46:23: #1 finished! INFO @ Sat, 11 Dec 2021 12:46:23: #2 Build Peak Model... INFO @ Sat, 11 Dec 2021 12:46:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 11 Dec 2021 12:46:24: #2 number of paired peaks: 1067 INFO @ Sat, 11 Dec 2021 12:46:24: start model_add_line... INFO @ Sat, 11 Dec 2021 12:46:24: start X-correlation... INFO @ Sat, 11 Dec 2021 12:46:24: end of X-cor INFO @ Sat, 11 Dec 2021 12:46:24: #2 finished! INFO @ Sat, 11 Dec 2021 12:46:24: #2 predicted fragment length is 49 bps INFO @ Sat, 11 Dec 2021 12:46:24: #2 alternative fragment length(s) may be 3,49,581 bps INFO @ Sat, 11 Dec 2021 12:46:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20_model.r WARNING @ Sat, 11 Dec 2021 12:46:24: #2 Since the d (49) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 11 Dec 2021 12:46:24: #2 You may need to consider one of the other alternative d(s): 3,49,581 WARNING @ Sat, 11 Dec 2021 12:46:24: #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 12:46:24: #3 Call peaks... INFO @ Sat, 11 Dec 2021 12:46:24: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 11 Dec 2021 12:46:32: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10_peaks.xls INFO @ Sat, 11 Dec 2021 12:46:32: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:46:32: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.10_summits.bed INFO @ Sat, 11 Dec 2021 12:46:32: Done! pass1 - making usageList (455 chroms): 1 millis pass2 - checking and writing primary data (1447 records, 4 fields): 15 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 11 Dec 2021 12:46:47: #3 Call peaks for each chromosome... INFO @ Sat, 11 Dec 2021 12:46:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20_peaks.xls INFO @ Sat, 11 Dec 2021 12:46:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20_peaks.narrowPeak INFO @ Sat, 11 Dec 2021 12:46:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX9986133/SRX9986133.20_summits.bed INFO @ Sat, 11 Dec 2021 12:46:58: Done! pass1 - making usageList (213 chroms): 0 millis pass2 - checking and writing primary data (479 records, 4 fields): 8 millis CompletedMACS2peakCalling