Job ID = 6530009 SRX = SRX6386755 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: 00:08:24 29105469 reads; of these: 29105469 (100.00%) were unpaired; of these: 2322828 (7.98%) aligned 0 times 19151361 (65.80%) aligned exactly 1 time 7631280 (26.22%) aligned >1 times 92.02% overall alignment rate Time searching: 00:08:24 Overall time: 00:08:24 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] 13780208 / 26782641 = 0.5145 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 03:06:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.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 03:06:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:06:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:06:57: 1000000 INFO @ Tue, 30 Jun 2020 03:07:02: 2000000 INFO @ Tue, 30 Jun 2020 03:07:07: 3000000 INFO @ Tue, 30 Jun 2020 03:07:12: 4000000 INFO @ Tue, 30 Jun 2020 03:07:17: 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 03:07:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.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 03:07:21: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:07:21: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:07:23: 6000000 INFO @ Tue, 30 Jun 2020 03:07:27: 1000000 INFO @ Tue, 30 Jun 2020 03:07:28: 7000000 INFO @ Tue, 30 Jun 2020 03:07:33: 2000000 INFO @ Tue, 30 Jun 2020 03:07:33: 8000000 INFO @ Tue, 30 Jun 2020 03:07:38: 3000000 INFO @ Tue, 30 Jun 2020 03:07:38: 9000000 INFO @ Tue, 30 Jun 2020 03:07:44: 4000000 INFO @ Tue, 30 Jun 2020 03:07:44: 10000000 INFO @ Tue, 30 Jun 2020 03:07:49: 5000000 BedGraph に変換中... INFO @ Tue, 30 Jun 2020 03:07:49: 11000000 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 03:07:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.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 03:07:51: #1 read tag files... INFO @ Tue, 30 Jun 2020 03:07:51: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 03:07:55: 6000000 INFO @ Tue, 30 Jun 2020 03:07:55: 12000000 INFO @ Tue, 30 Jun 2020 03:07:57: 1000000 INFO @ Tue, 30 Jun 2020 03:08:01: 7000000 INFO @ Tue, 30 Jun 2020 03:08:01: 13000000 INFO @ Tue, 30 Jun 2020 03:08:01: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:08:01: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:08:01: #1 total tags in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:08:01: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:08:01: #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 03:08:02: #1 tags after filtering in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:08:02: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:08:02: #1 finished! INFO @ Tue, 30 Jun 2020 03:08:02: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:08:02: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:08:03: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:08:03: start model_add_line... INFO @ Tue, 30 Jun 2020 03:08:03: start X-correlation... INFO @ Tue, 30 Jun 2020 03:08:03: end of X-cor INFO @ Tue, 30 Jun 2020 03:08:03: #2 finished! INFO @ Tue, 30 Jun 2020 03:08:03: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:08:03: #2 alternative fragment length(s) may be 2,38 bps INFO @ Tue, 30 Jun 2020 03:08:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05_model.r WARNING @ Tue, 30 Jun 2020 03:08:03: #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 03:08:03: #2 You may need to consider one of the other alternative d(s): 2,38 WARNING @ Tue, 30 Jun 2020 03:08:03: #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 03:08:03: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:08:03: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:08:03: 2000000 INFO @ Tue, 30 Jun 2020 03:08:06: 8000000 INFO @ Tue, 30 Jun 2020 03:08:09: 3000000 INFO @ Tue, 30 Jun 2020 03:08:12: 9000000 INFO @ Tue, 30 Jun 2020 03:08:14: 4000000 INFO @ Tue, 30 Jun 2020 03:08:18: 10000000 INFO @ Tue, 30 Jun 2020 03:08:20: 5000000 INFO @ Tue, 30 Jun 2020 03:08:24: 11000000 INFO @ Tue, 30 Jun 2020 03:08:25: 6000000 INFO @ Tue, 30 Jun 2020 03:08:29: 12000000 INFO @ Tue, 30 Jun 2020 03:08:30: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:08:30: 7000000 INFO @ Tue, 30 Jun 2020 03:08:35: 13000000 INFO @ Tue, 30 Jun 2020 03:08:35: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:08:35: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:08:35: #1 total tags in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:08:35: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:08:35: #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 03:08:36: #1 tags after filtering in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:08:36: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:08:36: #1 finished! INFO @ Tue, 30 Jun 2020 03:08:36: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:08:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:08:36: 8000000 INFO @ Tue, 30 Jun 2020 03:08:37: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:08:37: start model_add_line... INFO @ Tue, 30 Jun 2020 03:08:37: start X-correlation... INFO @ Tue, 30 Jun 2020 03:08:37: end of X-cor INFO @ Tue, 30 Jun 2020 03:08:37: #2 finished! INFO @ Tue, 30 Jun 2020 03:08:37: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:08:37: #2 alternative fragment length(s) may be 2,38 bps INFO @ Tue, 30 Jun 2020 03:08:37: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10_model.r WARNING @ Tue, 30 Jun 2020 03:08:37: #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 03:08:37: #2 You may need to consider one of the other alternative d(s): 2,38 WARNING @ Tue, 30 Jun 2020 03:08:37: #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 03:08:37: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:08:37: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:08:41: 9000000 INFO @ Tue, 30 Jun 2020 03:08:43: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05_peaks.xls INFO @ Tue, 30 Jun 2020 03:08:43: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:08:43: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.05_summits.bed INFO @ Tue, 30 Jun 2020 03:08:43: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 03:08:47: 10000000 INFO @ Tue, 30 Jun 2020 03:08:52: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 03:08:57: 12000000 INFO @ Tue, 30 Jun 2020 03:09:03: 13000000 INFO @ Tue, 30 Jun 2020 03:09:03: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 03:09:03: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 03:09:03: #1 total tags in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:09:03: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 03:09:03: #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 03:09:03: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:09:04: #1 tags after filtering in treatment: 13002433 INFO @ Tue, 30 Jun 2020 03:09:04: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 03:09:04: #1 finished! INFO @ Tue, 30 Jun 2020 03:09:04: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 03:09:04: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 03:09:05: #2 number of paired peaks: 1075 INFO @ Tue, 30 Jun 2020 03:09:05: start model_add_line... INFO @ Tue, 30 Jun 2020 03:09:05: start X-correlation... INFO @ Tue, 30 Jun 2020 03:09:05: end of X-cor INFO @ Tue, 30 Jun 2020 03:09:05: #2 finished! INFO @ Tue, 30 Jun 2020 03:09:05: #2 predicted fragment length is 2 bps INFO @ Tue, 30 Jun 2020 03:09:05: #2 alternative fragment length(s) may be 2,38 bps INFO @ Tue, 30 Jun 2020 03:09:05: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20_model.r WARNING @ Tue, 30 Jun 2020 03:09:05: #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 03:09:05: #2 You may need to consider one of the other alternative d(s): 2,38 WARNING @ Tue, 30 Jun 2020 03:09:05: #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 03:09:05: #3 Call peaks... INFO @ Tue, 30 Jun 2020 03:09:05: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 03:09:16: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10_peaks.xls INFO @ Tue, 30 Jun 2020 03:09:16: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:09:16: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.10_summits.bed INFO @ Tue, 30 Jun 2020 03:09:16: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 03:09:31: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 03:09:44: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20_peaks.xls INFO @ Tue, 30 Jun 2020 03:09:44: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 03:09:44: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX6386755/SRX6386755.20_summits.bed INFO @ Tue, 30 Jun 2020 03:09:44: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling