Job ID = 6529211 SRX = SRX042249 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: 00:00:01 Multiseed full-index search: 00:08:54 31509090 reads; of these: 31509090 (100.00%) were unpaired; of these: 3783049 (12.01%) aligned 0 times 26149171 (82.99%) aligned exactly 1 time 1576870 (5.00%) aligned >1 times 87.99% overall alignment rate Time searching: 00:08:55 Overall time: 00:08:55 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] 12964704 / 27726041 = 0.4676 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 02:32:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.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 02:32:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:32:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:32:34: 1000000 INFO @ Tue, 30 Jun 2020 02:32:40: 2000000 INFO @ Tue, 30 Jun 2020 02:32:46: 3000000 INFO @ Tue, 30 Jun 2020 02:32:53: 4000000 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 02:32:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.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 02:32:58: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:32:58: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:32:59: 5000000 INFO @ Tue, 30 Jun 2020 02:33:06: 1000000 INFO @ Tue, 30 Jun 2020 02:33:07: 6000000 INFO @ Tue, 30 Jun 2020 02:33:14: 7000000 INFO @ Tue, 30 Jun 2020 02:33:14: 2000000 INFO @ Tue, 30 Jun 2020 02:33:22: 8000000 INFO @ Tue, 30 Jun 2020 02:33:23: 3000000 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 02:33:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.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 02:33:28: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:33:28: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:33:29: 9000000 INFO @ Tue, 30 Jun 2020 02:33:31: 4000000 INFO @ Tue, 30 Jun 2020 02:33:36: 1000000 INFO @ Tue, 30 Jun 2020 02:33:37: 10000000 INFO @ Tue, 30 Jun 2020 02:33:39: 5000000 INFO @ Tue, 30 Jun 2020 02:33:44: 2000000 INFO @ Tue, 30 Jun 2020 02:33:45: 11000000 INFO @ Tue, 30 Jun 2020 02:33:48: 6000000 INFO @ Tue, 30 Jun 2020 02:33:52: 3000000 INFO @ Tue, 30 Jun 2020 02:33:53: 12000000 INFO @ Tue, 30 Jun 2020 02:33:56: 7000000 INFO @ Tue, 30 Jun 2020 02:34:01: 4000000 INFO @ Tue, 30 Jun 2020 02:34:01: 13000000 INFO @ Tue, 30 Jun 2020 02:34:05: 8000000 INFO @ Tue, 30 Jun 2020 02:34:09: 14000000 INFO @ Tue, 30 Jun 2020 02:34:09: 5000000 INFO @ Tue, 30 Jun 2020 02:34:13: 9000000 INFO @ Tue, 30 Jun 2020 02:34:15: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 02:34:15: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 02:34:15: #1 total tags in treatment: 14761337 INFO @ Tue, 30 Jun 2020 02:34:15: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:34:15: #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 02:34:15: #1 tags after filtering in treatment: 14760922 INFO @ Tue, 30 Jun 2020 02:34:15: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:34:15: #1 finished! INFO @ Tue, 30 Jun 2020 02:34:15: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:34:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:34:17: #2 number of paired peaks: 3970 INFO @ Tue, 30 Jun 2020 02:34:17: start model_add_line... INFO @ Tue, 30 Jun 2020 02:34:17: 6000000 INFO @ Tue, 30 Jun 2020 02:34:17: start X-correlation... INFO @ Tue, 30 Jun 2020 02:34:17: end of X-cor INFO @ Tue, 30 Jun 2020 02:34:17: #2 finished! INFO @ Tue, 30 Jun 2020 02:34:17: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:34:17: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 30 Jun 2020 02:34:17: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05_model.r WARNING @ Tue, 30 Jun 2020 02:34:17: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:34:17: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 30 Jun 2020 02:34:17: #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 02:34:17: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:34:17: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:34:21: 10000000 INFO @ Tue, 30 Jun 2020 02:34:25: 7000000 INFO @ Tue, 30 Jun 2020 02:34:30: 11000000 INFO @ Tue, 30 Jun 2020 02:34:33: 8000000 INFO @ Tue, 30 Jun 2020 02:34:38: 12000000 INFO @ Tue, 30 Jun 2020 02:34:39: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:34:41: 9000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:34:47: 13000000 INFO @ Tue, 30 Jun 2020 02:34:49: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:34:49: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:34:49: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.05_summits.bed INFO @ Tue, 30 Jun 2020 02:34:49: Done! INFO @ Tue, 30 Jun 2020 02:34:49: 10000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:34:55: 14000000 INFO @ Tue, 30 Jun 2020 02:34:58: 11000000 INFO @ Tue, 30 Jun 2020 02:35:02: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 02:35:02: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 02:35:02: #1 total tags in treatment: 14761337 INFO @ Tue, 30 Jun 2020 02:35:02: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:35:02: #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 02:35:03: #1 tags after filtering in treatment: 14760922 INFO @ Tue, 30 Jun 2020 02:35:03: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:35:03: #1 finished! INFO @ Tue, 30 Jun 2020 02:35:03: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:35:03: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:35:04: #2 number of paired peaks: 3970 INFO @ Tue, 30 Jun 2020 02:35:04: start model_add_line... INFO @ Tue, 30 Jun 2020 02:35:04: start X-correlation... INFO @ Tue, 30 Jun 2020 02:35:04: end of X-cor INFO @ Tue, 30 Jun 2020 02:35:04: #2 finished! INFO @ Tue, 30 Jun 2020 02:35:04: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:35:04: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 30 Jun 2020 02:35:04: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10_model.r WARNING @ Tue, 30 Jun 2020 02:35:04: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:35:04: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 30 Jun 2020 02:35:04: #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 02:35:04: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:35:04: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:35:06: 12000000 BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:35:13: 13000000 INFO @ Tue, 30 Jun 2020 02:35:19: 14000000 INFO @ Tue, 30 Jun 2020 02:35:24: #1 tag size is determined as 76 bps INFO @ Tue, 30 Jun 2020 02:35:24: #1 tag size = 76 INFO @ Tue, 30 Jun 2020 02:35:24: #1 total tags in treatment: 14761337 INFO @ Tue, 30 Jun 2020 02:35:24: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:35:24: #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 02:35:25: #1 tags after filtering in treatment: 14760922 INFO @ Tue, 30 Jun 2020 02:35:25: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:35:25: #1 finished! INFO @ Tue, 30 Jun 2020 02:35:25: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:35:25: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:35:26: #2 number of paired peaks: 3970 INFO @ Tue, 30 Jun 2020 02:35:26: start model_add_line... INFO @ Tue, 30 Jun 2020 02:35:26: start X-correlation... INFO @ Tue, 30 Jun 2020 02:35:26: end of X-cor INFO @ Tue, 30 Jun 2020 02:35:26: #2 finished! INFO @ Tue, 30 Jun 2020 02:35:26: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:35:26: #2 alternative fragment length(s) may be 1 bps INFO @ Tue, 30 Jun 2020 02:35:26: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20_model.r WARNING @ Tue, 30 Jun 2020 02:35:26: #2 Since the d (1) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Tue, 30 Jun 2020 02:35:26: #2 You may need to consider one of the other alternative d(s): 1 WARNING @ Tue, 30 Jun 2020 02:35:26: #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 02:35:26: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:35:26: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:35:26: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:35:37: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:35:37: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:35:37: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.10_summits.bed INFO @ Tue, 30 Jun 2020 02:35:37: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:35:48: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:35:58: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:35:58: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:35:58: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX042249/SRX042249.20_summits.bed INFO @ Tue, 30 Jun 2020 02:35:58: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling