Job ID = 6529405 SRX = SRX2520651 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: 00:09:25 33813091 reads; of these: 33813091 (100.00%) were unpaired; of these: 516966 (1.53%) aligned 0 times 27956157 (82.68%) aligned exactly 1 time 5339968 (15.79%) aligned >1 times 98.47% overall alignment rate Time searching: 00:09:25 Overall time: 00:09:25 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 16 files... [bam_rmdupse_core] 17870238 / 33296125 = 0.5367 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 02:18:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.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 02:18:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:18:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:18:32: 1000000 INFO @ Tue, 30 Jun 2020 02:18:37: 2000000 INFO @ Tue, 30 Jun 2020 02:18:42: 3000000 INFO @ Tue, 30 Jun 2020 02:18:48: 4000000 INFO @ Tue, 30 Jun 2020 02:18:53: 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 02:18:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.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 02:18:57: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:18:57: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:18:58: 6000000 INFO @ Tue, 30 Jun 2020 02:19:02: 1000000 INFO @ Tue, 30 Jun 2020 02:19:04: 7000000 INFO @ Tue, 30 Jun 2020 02:19:07: 2000000 INFO @ Tue, 30 Jun 2020 02:19:09: 8000000 INFO @ Tue, 30 Jun 2020 02:19:13: 3000000 INFO @ Tue, 30 Jun 2020 02:19:15: 9000000 INFO @ Tue, 30 Jun 2020 02:19:18: 4000000 INFO @ Tue, 30 Jun 2020 02:19:20: 10000000 INFO @ Tue, 30 Jun 2020 02:19:24: 5000000 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 02:19:25: 11000000 INFO @ Tue, 30 Jun 2020 02:19:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.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 02:19:27: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:19:27: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:19:29: 6000000 INFO @ Tue, 30 Jun 2020 02:19:31: 12000000 INFO @ Tue, 30 Jun 2020 02:19:32: 1000000 INFO @ Tue, 30 Jun 2020 02:19:35: 7000000 INFO @ Tue, 30 Jun 2020 02:19:37: 13000000 INFO @ Tue, 30 Jun 2020 02:19:38: 2000000 INFO @ Tue, 30 Jun 2020 02:19:40: 8000000 INFO @ Tue, 30 Jun 2020 02:19:43: 14000000 INFO @ Tue, 30 Jun 2020 02:19:43: 3000000 INFO @ Tue, 30 Jun 2020 02:19:46: 9000000 INFO @ Tue, 30 Jun 2020 02:19:48: 15000000 INFO @ Tue, 30 Jun 2020 02:19:49: 4000000 INFO @ Tue, 30 Jun 2020 02:19:51: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:19:51: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:19:51: #1 total tags in treatment: 15425887 INFO @ Tue, 30 Jun 2020 02:19:51: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:19:51: #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 02:19:51: 10000000 INFO @ Tue, 30 Jun 2020 02:19:52: #1 tags after filtering in treatment: 15425819 INFO @ Tue, 30 Jun 2020 02:19:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:19:52: #1 finished! INFO @ Tue, 30 Jun 2020 02:19:52: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:19:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:19:53: #2 number of paired peaks: 1220 INFO @ Tue, 30 Jun 2020 02:19:53: start model_add_line... INFO @ Tue, 30 Jun 2020 02:19:53: start X-correlation... INFO @ Tue, 30 Jun 2020 02:19:53: end of X-cor INFO @ Tue, 30 Jun 2020 02:19:53: #2 finished! INFO @ Tue, 30 Jun 2020 02:19:53: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:19:53: #2 alternative fragment length(s) may be 1,50,110,118 bps INFO @ Tue, 30 Jun 2020 02:19:53: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05_model.r WARNING @ Tue, 30 Jun 2020 02:19:53: #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 02:19:53: #2 You may need to consider one of the other alternative d(s): 1,50,110,118 WARNING @ Tue, 30 Jun 2020 02:19:53: #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 02:19:53: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:19:53: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:19:55: 5000000 INFO @ Tue, 30 Jun 2020 02:19:57: 11000000 INFO @ Tue, 30 Jun 2020 02:20:00: 6000000 INFO @ Tue, 30 Jun 2020 02:20:02: 12000000 INFO @ Tue, 30 Jun 2020 02:20:06: 7000000 INFO @ Tue, 30 Jun 2020 02:20:08: 13000000 INFO @ Tue, 30 Jun 2020 02:20:11: 8000000 INFO @ Tue, 30 Jun 2020 02:20:14: 14000000 INFO @ Tue, 30 Jun 2020 02:20:17: 9000000 INFO @ Tue, 30 Jun 2020 02:20:20: 15000000 INFO @ Tue, 30 Jun 2020 02:20:21: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:20:22: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:20:22: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:20:22: #1 total tags in treatment: 15425887 INFO @ Tue, 30 Jun 2020 02:20:22: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:20:22: #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 02:20:22: 10000000 INFO @ Tue, 30 Jun 2020 02:20:23: #1 tags after filtering in treatment: 15425819 INFO @ Tue, 30 Jun 2020 02:20:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:20:23: #1 finished! INFO @ Tue, 30 Jun 2020 02:20:23: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:20:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:20:24: #2 number of paired peaks: 1220 INFO @ Tue, 30 Jun 2020 02:20:24: start model_add_line... INFO @ Tue, 30 Jun 2020 02:20:24: start X-correlation... INFO @ Tue, 30 Jun 2020 02:20:24: end of X-cor INFO @ Tue, 30 Jun 2020 02:20:24: #2 finished! INFO @ Tue, 30 Jun 2020 02:20:24: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:20:24: #2 alternative fragment length(s) may be 1,50,110,118 bps INFO @ Tue, 30 Jun 2020 02:20:24: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10_model.r WARNING @ Tue, 30 Jun 2020 02:20:24: #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 02:20:24: #2 You may need to consider one of the other alternative d(s): 1,50,110,118 WARNING @ Tue, 30 Jun 2020 02:20:24: #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 02:20:24: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:20:24: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:20:28: 11000000 INFO @ Tue, 30 Jun 2020 02:20:33: 12000000 INFO @ Tue, 30 Jun 2020 02:20:34: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:20:34: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:20:34: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.05_summits.bed INFO @ Tue, 30 Jun 2020 02:20:34: Done! BedGraph に変換しました。 BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:20:39: 13000000 INFO @ Tue, 30 Jun 2020 02:20:45: 14000000 INFO @ Tue, 30 Jun 2020 02:20:50: 15000000 INFO @ Tue, 30 Jun 2020 02:20:51: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:20:53: #1 tag size is determined as 50 bps INFO @ Tue, 30 Jun 2020 02:20:53: #1 tag size = 50 INFO @ Tue, 30 Jun 2020 02:20:53: #1 total tags in treatment: 15425887 INFO @ Tue, 30 Jun 2020 02:20:53: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:20:53: #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 02:20:53: #1 tags after filtering in treatment: 15425819 INFO @ Tue, 30 Jun 2020 02:20:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:20:53: #1 finished! INFO @ Tue, 30 Jun 2020 02:20:53: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:20:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:20:55: #2 number of paired peaks: 1220 INFO @ Tue, 30 Jun 2020 02:20:55: start model_add_line... INFO @ Tue, 30 Jun 2020 02:20:55: start X-correlation... INFO @ Tue, 30 Jun 2020 02:20:55: end of X-cor INFO @ Tue, 30 Jun 2020 02:20:55: #2 finished! INFO @ Tue, 30 Jun 2020 02:20:55: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:20:55: #2 alternative fragment length(s) may be 1,50,110,118 bps INFO @ Tue, 30 Jun 2020 02:20:55: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20_model.r WARNING @ Tue, 30 Jun 2020 02:20:55: #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 02:20:55: #2 You may need to consider one of the other alternative d(s): 1,50,110,118 WARNING @ Tue, 30 Jun 2020 02:20:55: #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 02:20:55: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:20:55: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:21:04: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:21:04: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:21:04: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.10_summits.bed INFO @ Tue, 30 Jun 2020 02:21:04: 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 02:21:22: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:21:35: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:21:35: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:21:35: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX2520651/SRX2520651.20_summits.bed INFO @ Tue, 30 Jun 2020 02:21:35: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling