Job ID = 12265445 SRX = SRX5010762 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: 00:05:48 22607002 reads; of these: 22607002 (100.00%) were unpaired; of these: 716757 (3.17%) aligned 0 times 17419385 (77.05%) aligned exactly 1 time 4470860 (19.78%) aligned >1 times 96.83% overall alignment rate Time searching: 00:05:48 Overall time: 00:05:48 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 12 files... [bam_rmdupse_core] 12233509 / 21890245 = 0.5589 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 07:13:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.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 07:13:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:13:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:13:47: 1000000 INFO @ Sat, 03 Apr 2021 07:13:53: 2000000 INFO @ Sat, 03 Apr 2021 07:13:58: 3000000 INFO @ Sat, 03 Apr 2021 07:14:03: 4000000 INFO @ Sat, 03 Apr 2021 07:14:08: 5000000 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 07:14:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.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 07:14:12: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:14:12: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:14:13: 6000000 INFO @ Sat, 03 Apr 2021 07:14:18: 1000000 INFO @ Sat, 03 Apr 2021 07:14:18: 7000000 INFO @ Sat, 03 Apr 2021 07:14:23: 2000000 INFO @ Sat, 03 Apr 2021 07:14:24: 8000000 INFO @ Sat, 03 Apr 2021 07:14:29: 3000000 INFO @ Sat, 03 Apr 2021 07:14:29: 9000000 INFO @ Sat, 03 Apr 2021 07:14:32: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:14:32: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:14:32: #1 total tags in treatment: 9656736 INFO @ Sat, 03 Apr 2021 07:14:32: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:14:32: #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 07:14:33: #1 tags after filtering in treatment: 9656639 INFO @ Sat, 03 Apr 2021 07:14:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:14:33: #1 finished! INFO @ Sat, 03 Apr 2021 07:14:33: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:14:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:14:34: #2 number of paired peaks: 1895 INFO @ Sat, 03 Apr 2021 07:14:34: start model_add_line... INFO @ Sat, 03 Apr 2021 07:14:34: start X-correlation... INFO @ Sat, 03 Apr 2021 07:14:34: end of X-cor INFO @ Sat, 03 Apr 2021 07:14:34: #2 finished! INFO @ Sat, 03 Apr 2021 07:14:34: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 07:14:34: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 07:14:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05_model.r WARNING @ Sat, 03 Apr 2021 07:14:34: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:14:34: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 07:14:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:14:34: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:14:34: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:14:34: 4000000 INFO @ Sat, 03 Apr 2021 07:14:39: 5000000 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 07:14:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.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 07:14:42: #1 read tag files... INFO @ Sat, 03 Apr 2021 07:14:42: #1 read treatment tags... INFO @ Sat, 03 Apr 2021 07:14:44: 6000000 INFO @ Sat, 03 Apr 2021 07:14:48: 1000000 INFO @ Sat, 03 Apr 2021 07:14:49: 7000000 INFO @ Sat, 03 Apr 2021 07:14:53: 2000000 INFO @ Sat, 03 Apr 2021 07:14:55: 8000000 INFO @ Sat, 03 Apr 2021 07:14:56: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:14:59: 3000000 INFO @ Sat, 03 Apr 2021 07:15:00: 9000000 INFO @ Sat, 03 Apr 2021 07:15:04: 4000000 INFO @ Sat, 03 Apr 2021 07:15:04: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:15:04: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:15:04: #1 total tags in treatment: 9656736 INFO @ Sat, 03 Apr 2021 07:15:04: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:15:04: #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 07:15:05: #1 tags after filtering in treatment: 9656639 INFO @ Sat, 03 Apr 2021 07:15:05: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:15:05: #1 finished! INFO @ Sat, 03 Apr 2021 07:15:05: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:15:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:15:05: #2 number of paired peaks: 1895 INFO @ Sat, 03 Apr 2021 07:15:05: start model_add_line... INFO @ Sat, 03 Apr 2021 07:15:05: start X-correlation... INFO @ Sat, 03 Apr 2021 07:15:05: end of X-cor INFO @ Sat, 03 Apr 2021 07:15:05: #2 finished! INFO @ Sat, 03 Apr 2021 07:15:05: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 07:15:05: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 07:15:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10_model.r WARNING @ Sat, 03 Apr 2021 07:15:05: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:15:05: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 07:15:05: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Sat, 03 Apr 2021 07:15:05: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:15:05: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:15:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05_peaks.xls INFO @ Sat, 03 Apr 2021 07:15:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:15:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.05_summits.bed INFO @ Sat, 03 Apr 2021 07:15:08: Done! pass1 - making usageList (419 chroms): 2 millis pass2 - checking and writing primary data (9206 records, 4 fields): 22 millis CompletedMACS2peakCalling INFO @ Sat, 03 Apr 2021 07:15:09: 5000000 INFO @ Sat, 03 Apr 2021 07:15:14: 6000000 INFO @ Sat, 03 Apr 2021 07:15:20: 7000000 INFO @ Sat, 03 Apr 2021 07:15:25: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 03 Apr 2021 07:15:27: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:15:30: 9000000 INFO @ Sat, 03 Apr 2021 07:15:34: #1 tag size is determined as 50 bps INFO @ Sat, 03 Apr 2021 07:15:34: #1 tag size = 50 INFO @ Sat, 03 Apr 2021 07:15:34: #1 total tags in treatment: 9656736 INFO @ Sat, 03 Apr 2021 07:15:34: #1 user defined the maximum tags... INFO @ Sat, 03 Apr 2021 07:15:34: #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 07:15:34: #1 tags after filtering in treatment: 9656639 INFO @ Sat, 03 Apr 2021 07:15:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 03 Apr 2021 07:15:34: #1 finished! INFO @ Sat, 03 Apr 2021 07:15:34: #2 Build Peak Model... INFO @ Sat, 03 Apr 2021 07:15:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 03 Apr 2021 07:15:35: #2 number of paired peaks: 1895 INFO @ Sat, 03 Apr 2021 07:15:35: start model_add_line... INFO @ Sat, 03 Apr 2021 07:15:35: start X-correlation... INFO @ Sat, 03 Apr 2021 07:15:35: end of X-cor INFO @ Sat, 03 Apr 2021 07:15:35: #2 finished! INFO @ Sat, 03 Apr 2021 07:15:35: #2 predicted fragment length is 83 bps INFO @ Sat, 03 Apr 2021 07:15:35: #2 alternative fragment length(s) may be 83 bps INFO @ Sat, 03 Apr 2021 07:15:35: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20_model.r WARNING @ Sat, 03 Apr 2021 07:15:35: #2 Since the d (83) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Sat, 03 Apr 2021 07:15:35: #2 You may need to consider one of the other alternative d(s): 83 WARNING @ Sat, 03 Apr 2021 07:15:35: #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 07:15:35: #3 Call peaks... INFO @ Sat, 03 Apr 2021 07:15:35: #3 Pre-compute pvalue-qvalue table... INFO @ Sat, 03 Apr 2021 07:15:39: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10_peaks.xls INFO @ Sat, 03 Apr 2021 07:15:39: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:15:39: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.10_summits.bed INFO @ Sat, 03 Apr 2021 07:15:39: Done! pass1 - making usageList (276 chroms): 2 millis pass2 - checking and writing primary data (5346 records, 4 fields): 14 millis CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 03 Apr 2021 07:15:58: #3 Call peaks for each chromosome... INFO @ Sat, 03 Apr 2021 07:16:09: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20_peaks.xls INFO @ Sat, 03 Apr 2021 07:16:09: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20_peaks.narrowPeak INFO @ Sat, 03 Apr 2021 07:16:09: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX5010762/SRX5010762.20_summits.bed INFO @ Sat, 03 Apr 2021 07:16:09: Done! pass1 - making usageList (152 chroms): 1 millis pass2 - checking and writing primary data (2510 records, 4 fields): 9 millis CompletedMACS2peakCalling