Job ID = 12265923 SRX = SRX7281024 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: 00:06:37 25511419 reads; of these: 25511419 (100.00%) were unpaired; of these: 17732340 (69.51%) aligned 0 times 6949606 (27.24%) aligned exactly 1 time 829473 (3.25%) aligned >1 times 30.49% overall alignment rate Time searching: 00:06:37 Overall time: 00:06:37 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] 3047072 / 7779079 = 0.3917 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 08:46:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.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 08:46:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:46:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:46:42: 1000000 INFO @ Sat, 03 Apr 2021 08:46:50: 2000000 INFO @ Sat, 03 Apr 2021 08:46:59: 3000000 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 08:47:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.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 08:47:03: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:47:03: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:47:08: 4000000 INFO @ Sat, 03 Apr 2021 08:47:12: 1000000 INFO @ Sat, 03 Apr 2021 08:47:15: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:47:15: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:47:15: #1 total tags in treatment: 4732007 INFO @ Sat, 03 Apr 2021 08:47:15: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:47:15: #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 08:47:16: #1 tags after filtering in treatment: 4731861 INFO @ Sat, 03 Apr 2021 08:47:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:47:16: #1 finished! INFO @ Sat, 03 Apr 2021 08:47:16: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:47:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:47:16: #2 number of paired peaks: 3283 INFO @ Sat, 03 Apr 2021 08:47:16: start model_add_line... INFO @ Sat, 03 Apr 2021 08:47:16: start X-correlation... INFO @ Sat, 03 Apr 2021 08:47:16: end of X-cor INFO @ Sat, 03 Apr 2021 08:47:16: #2 finished! INFO @ Sat, 03 Apr 2021 08:47:16: #2 predicted fragment length is 95 bps INFO @ Sat, 03 Apr 2021 08:47:16: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 03 Apr 2021 08:47:16: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05_model.r WARNING @ Sat, 03 Apr 2021 08:47:16: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:47:16: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 03 Apr 2021 08:47:16: #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 08:47:16: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:47:16: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:47:21: 2000000 INFO @ Sat, 03 Apr 2021 08:47:28: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:47:30: 3000000 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 08:47:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.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 08:47:33: #1 read tag files... INFO @ Sat, 03 Apr 2021 08:47:33: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 08:47:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05_peaks.xls INFO @ Sat, 03 Apr 2021 08:47:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:47:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.05_summits.bed INFO @ Sat, 03 Apr 2021 08:47:34: Done! pass1 - making usageList (182 chroms): 3 millis pass2 - checking and writing primary data (11908 records, 4 fields): 18 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:47:39: 4000000 INFO @ Sat, 03 Apr 2021 08:47:43: 1000000 INFO @ Sat, 03 Apr 2021 08:47:46: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:47:46: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:47:46: #1 total tags in treatment: 4732007 INFO @ Sat, 03 Apr 2021 08:47:46: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:47:46: #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 08:47:46: #1 tags after filtering in treatment: 4731861 INFO @ Sat, 03 Apr 2021 08:47:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:47:46: #1 finished! INFO @ Sat, 03 Apr 2021 08:47:46: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:47:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:47:47: #2 number of paired peaks: 3283 INFO @ Sat, 03 Apr 2021 08:47:47: start model_add_line... INFO @ Sat, 03 Apr 2021 08:47:47: start X-correlation... INFO @ Sat, 03 Apr 2021 08:47:47: end of X-cor INFO @ Sat, 03 Apr 2021 08:47:47: #2 finished! INFO @ Sat, 03 Apr 2021 08:47:47: #2 predicted fragment length is 95 bps INFO @ Sat, 03 Apr 2021 08:47:47: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 03 Apr 2021 08:47:47: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10_model.r WARNING @ Sat, 03 Apr 2021 08:47:47: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:47:47: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 03 Apr 2021 08:47:47: #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 08:47:47: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:47:47: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:47:52: 2000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 08:47:59: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:48:01: 3000000 INFO @ Sat, 03 Apr 2021 08:48:05: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10_peaks.xls INFO @ Sat, 03 Apr 2021 08:48:05: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:48:05: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.10_summits.bed INFO @ Sat, 03 Apr 2021 08:48:05: Done! pass1 - making usageList (96 chroms): 2 millis pass2 - checking and writing primary data (6478 records, 4 fields): 11 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 08:48:10: 4000000 BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 08:48:17: #1 tag size is determined as 74 bps INFO @ Sat, 03 Apr 2021 08:48:17: #1 tag size = 74 INFO @ Sat, 03 Apr 2021 08:48:17: #1 total tags in treatment: 4732007 INFO @ Sat, 03 Apr 2021 08:48:17: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 08:48:17: #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 08:48:17: #1 tags after filtering in treatment: 4731861 INFO @ Sat, 03 Apr 2021 08:48:17: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 08:48:17: #1 finished! INFO @ Sat, 03 Apr 2021 08:48:17: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 08:48:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 08:48:17: #2 number of paired peaks: 3283 INFO @ Sat, 03 Apr 2021 08:48:17: start model_add_line... INFO @ Sat, 03 Apr 2021 08:48:18: start X-correlation... INFO @ Sat, 03 Apr 2021 08:48:18: end of X-cor INFO @ Sat, 03 Apr 2021 08:48:18: #2 finished! INFO @ Sat, 03 Apr 2021 08:48:18: #2 predicted fragment length is 95 bps INFO @ Sat, 03 Apr 2021 08:48:18: #2 alternative fragment length(s) may be 95 bps INFO @ Sat, 03 Apr 2021 08:48:18: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20_model.r WARNING @ Sat, 03 Apr 2021 08:48:18: #2 Since the d (95) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 08:48:18: #2 You may need to consider one of the other alternative d(s): 95 WARNING @ Sat, 03 Apr 2021 08:48:18: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 08:48:18: #3 Call peaks... INFO @ Sat, 03 Apr 2021 08:48:18: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 08:48:29: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 08:48:36: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20_peaks.xls INFO @ Sat, 03 Apr 2021 08:48:36: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 08:48:36: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX7281024/SRX7281024.20_summits.bed INFO @ Sat, 03 Apr 2021 08:48:36: Done! pass1 - making usageList (68 chroms): 1 millis pass2 - checking and writing primary data (2198 records, 4 fields): 6 millis CompletedMACS2peakCalling