Job ID = 6529759 SRX = SRX467060 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: 00:15:08 29119791 reads; of these: 29119791 (100.00%) were unpaired; of these: 1598755 (5.49%) aligned 0 times 11401204 (39.15%) aligned exactly 1 time 16119832 (55.36%) aligned >1 times 94.51% overall alignment rate Time searching: 00:15:08 Overall time: 00:15:08 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] 13709192 / 27521036 = 0.4981 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:31:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.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 @ Tue, 30 Jun 2020 03:31:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:31:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:31:15: 1000000 INFO @ Tue, 30 Jun 2020 03:31:20: 2000000 INFO @ Tue, 30 Jun 2020 03:31:25: 3000000 INFO @ Tue, 30 Jun 2020 03:31:31: 4000000 INFO @ Tue, 30 Jun 2020 03:31:36: 5000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:31:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.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 @ Tue, 30 Jun 2020 03:31:39: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:31:39: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:31:41: 6000000 INFO @ Tue, 30 Jun 2020 03:31:46: 1000000 INFO @ Tue, 30 Jun 2020 03:31:47: 7000000 INFO @ Tue, 30 Jun 2020 03:31:51: 2000000 INFO @ Tue, 30 Jun 2020 03:31:53: 8000000 INFO @ Tue, 30 Jun 2020 03:31:57: 3000000 INFO @ Tue, 30 Jun 2020 03:31:59: 9000000 INFO @ Tue, 30 Jun 2020 03:32:03: 4000000 INFO @ Tue, 30 Jun 2020 03:32:04: 10000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 30 Jun 2020 03:32:09: 5000000 INFO @ Tue, 30 Jun 2020 03:32:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.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 @ Tue, 30 Jun 2020 03:32:09: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:32:09: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:32:11: 11000000 INFO @ Tue, 30 Jun 2020 03:32:15: 6000000 INFO @ Tue, 30 Jun 2020 03:32:15: 1000000 INFO @ Tue, 30 Jun 2020 03:32:17: 12000000 INFO @ Tue, 30 Jun 2020 03:32:21: 7000000 INFO @ Tue, 30 Jun 2020 03:32:22: 2000000 INFO @ Tue, 30 Jun 2020 03:32:22: 13000000 INFO @ Tue, 30 Jun 2020 03:32:27: 8000000 INFO @ Tue, 30 Jun 2020 03:32:28: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:32:28: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:32:28: #1 total tags in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:32:28: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:32:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:32:28: 3000000 INFO @ Tue, 30 Jun 2020 03:32:28: #1 tags after filtering in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:32:28: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:32:28: #1 finished! INFO @ Tue, 30 Jun 2020 03:32:28: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:32:28: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:32:29: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:32:29: start model_add_line... INFO @ Tue, 30 Jun 2020 03:32:30: start X-correlation... INFO @ Tue, 30 Jun 2020 03:32:30: end of X-cor INFO @ Tue, 30 Jun 2020 03:32:30: #2 finished! INFO @ Tue, 30 Jun 2020 03:32:30: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:32:30: #2 alternative fragment length(s) may be 2,578 bps INFO @ Tue, 30 Jun 2020 03:32:30: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05_model.r WARNING @ Tue, 30 Jun 2020 03:32:30: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:32:30: #2 You may need to consider one of the other alternative d(s): 2,578 WARNING @ Tue, 30 Jun 2020 03:32:30: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:32:30: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:32:30: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:32:32: 9000000 INFO @ Tue, 30 Jun 2020 03:32:34: 4000000 INFO @ Tue, 30 Jun 2020 03:32:38: 10000000 INFO @ Tue, 30 Jun 2020 03:32:40: 5000000 INFO @ Tue, 30 Jun 2020 03:32:45: 11000000 INFO @ Tue, 30 Jun 2020 03:32:46: 6000000 INFO @ Tue, 30 Jun 2020 03:32:50: 12000000 INFO @ Tue, 30 Jun 2020 03:32:51: 7000000 INFO @ Tue, 30 Jun 2020 03:32:52: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:32:55: 13000000 INFO @ Tue, 30 Jun 2020 03:32:57: 8000000 INFO @ Tue, 30 Jun 2020 03:33:00: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:33:00: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:33:00: #1 total tags in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:33:00: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:33:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:33:01: #1 tags after filtering in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:33:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:33:01: #1 finished! INFO @ Tue, 30 Jun 2020 03:33:01: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:33:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:33:02: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:33:02: start model_add_line... INFO @ Tue, 30 Jun 2020 03:33:03: start X-correlation... INFO @ Tue, 30 Jun 2020 03:33:03: end of X-cor INFO @ Tue, 30 Jun 2020 03:33:03: #2 finished! INFO @ Tue, 30 Jun 2020 03:33:03: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:33:03: #2 alternative fragment length(s) may be 2,578 bps INFO @ Tue, 30 Jun 2020 03:33:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10_model.r WARNING @ Tue, 30 Jun 2020 03:33:03: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:33:03: #2 You may need to consider one of the other alternative d(s): 2,578 WARNING @ Tue, 30 Jun 2020 03:33:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:33:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:33:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:33:03: 9000000 INFO @ Tue, 30 Jun 2020 03:33:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:33:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:33:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.05_summits.bed INFO @ Tue, 30 Jun 2020 03:33:04: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:33:09: 10000000 INFO @ Tue, 30 Jun 2020 03:33:15: 11000000 INFO @ Tue, 30 Jun 2020 03:33:21: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:33:25: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:33:26: 13000000 INFO @ Tue, 30 Jun 2020 03:33:32: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 03:33:32: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 03:33:32: #1 total tags in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:33:32: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:33:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 30 Jun 2020 03:33:32: #1 tags after filtering in treatment: 13811844 INFO @ Tue, 30 Jun 2020 03:33:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:33:32: #1 finished! INFO @ Tue, 30 Jun 2020 03:33:32: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:33:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:33:33: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:33:33: start model_add_line... INFO @ Tue, 30 Jun 2020 03:33:34: start X-correlation... INFO @ Tue, 30 Jun 2020 03:33:34: end of X-cor INFO @ Tue, 30 Jun 2020 03:33:34: #2 finished! INFO @ Tue, 30 Jun 2020 03:33:34: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:33:34: #2 alternative fragment length(s) may be 2,578 bps INFO @ Tue, 30 Jun 2020 03:33:34: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20_model.r WARNING @ Tue, 30 Jun 2020 03:33:34: #2 Since the d (2) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 03:33:34: #2 You may need to consider one of the other alternative d(s): 2,578 WARNING @ Tue, 30 Jun 2020 03:33:34: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Tue, 30 Jun 2020 03:33:34: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:33:34: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:33:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:33:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:33:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.10_summits.bed INFO @ Tue, 30 Jun 2020 03:33:37: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:33:56: #3 Call peaks for each chromosome... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:34:08: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:34:08: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:34:08: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX467060/SRX467060.20_summits.bed INFO @ Tue, 30 Jun 2020 03:34:08: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling