Job ID = 6529343 SRX = SRX193311 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: 00:09:26 31198859 reads; of these: 31198859 (100.00%) were unpaired; of these: 1174097 (3.76%) aligned 0 times 19918360 (63.84%) aligned exactly 1 time 10106402 (32.39%) aligned >1 times 96.24% overall alignment rate Time searching: 00:09:26 Overall time: 00:09:26 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] 7040391 / 30024762 = 0.2345 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 02:03:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.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 02:03:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:03:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:04:01: 1000000 INFO @ Tue, 30 Jun 2020 02:04:07: 2000000 INFO @ Tue, 30 Jun 2020 02:04:12: 3000000 INFO @ Tue, 30 Jun 2020 02:04:18: 4000000 INFO @ Tue, 30 Jun 2020 02:04:23: 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 02:04:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.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 02:04:26: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:04:26: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:04:29: 6000000 INFO @ Tue, 30 Jun 2020 02:04:32: 1000000 INFO @ Tue, 30 Jun 2020 02:04:35: 7000000 INFO @ Tue, 30 Jun 2020 02:04:38: 2000000 INFO @ Tue, 30 Jun 2020 02:04:41: 8000000 INFO @ Tue, 30 Jun 2020 02:04:44: 3000000 INFO @ Tue, 30 Jun 2020 02:04:47: 9000000 INFO @ Tue, 30 Jun 2020 02:04:51: 4000000 INFO @ Tue, 30 Jun 2020 02:04:53: 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 02:04:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.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 02:04:56: #1 read tag files... INFO @ Tue, 30 Jun 2020 02:04:56: #1 read treatment tags... INFO @ Tue, 30 Jun 2020 02:04:57: 5000000 INFO @ Tue, 30 Jun 2020 02:04:59: 11000000 INFO @ Tue, 30 Jun 2020 02:05:03: 1000000 INFO @ Tue, 30 Jun 2020 02:05:03: 6000000 INFO @ Tue, 30 Jun 2020 02:05:06: 12000000 INFO @ Tue, 30 Jun 2020 02:05:09: 2000000 INFO @ Tue, 30 Jun 2020 02:05:10: 7000000 INFO @ Tue, 30 Jun 2020 02:05:12: 13000000 INFO @ Tue, 30 Jun 2020 02:05:16: 3000000 INFO @ Tue, 30 Jun 2020 02:05:16: 8000000 INFO @ Tue, 30 Jun 2020 02:05:19: 14000000 INFO @ Tue, 30 Jun 2020 02:05:22: 4000000 INFO @ Tue, 30 Jun 2020 02:05:22: 9000000 INFO @ Tue, 30 Jun 2020 02:05:25: 15000000 INFO @ Tue, 30 Jun 2020 02:05:29: 5000000 INFO @ Tue, 30 Jun 2020 02:05:29: 10000000 INFO @ Tue, 30 Jun 2020 02:05:32: 16000000 INFO @ Tue, 30 Jun 2020 02:05:35: 11000000 INFO @ Tue, 30 Jun 2020 02:05:36: 6000000 INFO @ Tue, 30 Jun 2020 02:05:38: 17000000 INFO @ Tue, 30 Jun 2020 02:05:42: 12000000 INFO @ Tue, 30 Jun 2020 02:05:42: 7000000 INFO @ Tue, 30 Jun 2020 02:05:45: 18000000 INFO @ Tue, 30 Jun 2020 02:05:48: 13000000 INFO @ Tue, 30 Jun 2020 02:05:48: 8000000 INFO @ Tue, 30 Jun 2020 02:05:51: 19000000 INFO @ Tue, 30 Jun 2020 02:05:54: 14000000 INFO @ Tue, 30 Jun 2020 02:05:55: 9000000 INFO @ Tue, 30 Jun 2020 02:05:58: 20000000 INFO @ Tue, 30 Jun 2020 02:06:01: 15000000 INFO @ Tue, 30 Jun 2020 02:06:01: 10000000 INFO @ Tue, 30 Jun 2020 02:06:04: 21000000 INFO @ Tue, 30 Jun 2020 02:06:07: 16000000 INFO @ Tue, 30 Jun 2020 02:06:07: 11000000 INFO @ Tue, 30 Jun 2020 02:06:10: 22000000 INFO @ Tue, 30 Jun 2020 02:06:13: 17000000 INFO @ Tue, 30 Jun 2020 02:06:13: 12000000 INFO @ Tue, 30 Jun 2020 02:06:17: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:06:17: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:06:17: #1 total tags in treatment: 22984371 INFO @ Tue, 30 Jun 2020 02:06:17: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:06:17: #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 02:06:17: #1 tags after filtering in treatment: 22984310 INFO @ Tue, 30 Jun 2020 02:06:17: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:06:17: #1 finished! INFO @ Tue, 30 Jun 2020 02:06:17: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:06:17: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:06:19: #2 number of paired peaks: 1009 INFO @ Tue, 30 Jun 2020 02:06:19: start model_add_line... INFO @ Tue, 30 Jun 2020 02:06:19: start X-correlation... INFO @ Tue, 30 Jun 2020 02:06:19: end of X-cor INFO @ Tue, 30 Jun 2020 02:06:19: #2 finished! INFO @ Tue, 30 Jun 2020 02:06:19: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:06:19: #2 alternative fragment length(s) may be 1,32,45,582 bps INFO @ Tue, 30 Jun 2020 02:06:19: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05_model.r WARNING @ Tue, 30 Jun 2020 02:06:19: #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 02:06:19: #2 You may need to consider one of the other alternative d(s): 1,32,45,582 WARNING @ Tue, 30 Jun 2020 02:06:19: #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 02:06:19: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:06:19: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:06:19: 18000000 INFO @ Tue, 30 Jun 2020 02:06:20: 13000000 INFO @ Tue, 30 Jun 2020 02:06:25: 19000000 INFO @ Tue, 30 Jun 2020 02:06:26: 14000000 INFO @ Tue, 30 Jun 2020 02:06:31: 20000000 INFO @ Tue, 30 Jun 2020 02:06:32: 15000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 30 Jun 2020 02:06:38: 21000000 INFO @ Tue, 30 Jun 2020 02:06:38: 16000000 INFO @ Tue, 30 Jun 2020 02:06:44: 22000000 INFO @ Tue, 30 Jun 2020 02:06:44: 17000000 INFO @ Tue, 30 Jun 2020 02:06:50: 18000000 INFO @ Tue, 30 Jun 2020 02:06:50: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:06:50: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:06:50: #1 total tags in treatment: 22984371 INFO @ Tue, 30 Jun 2020 02:06:50: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:06:50: #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 02:06:51: #1 tags after filtering in treatment: 22984310 INFO @ Tue, 30 Jun 2020 02:06:51: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:06:51: #1 finished! INFO @ Tue, 30 Jun 2020 02:06:51: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:06:51: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:06:52: #2 number of paired peaks: 1009 INFO @ Tue, 30 Jun 2020 02:06:52: start model_add_line... INFO @ Tue, 30 Jun 2020 02:06:52: start X-correlation... INFO @ Tue, 30 Jun 2020 02:06:52: end of X-cor INFO @ Tue, 30 Jun 2020 02:06:52: #2 finished! INFO @ Tue, 30 Jun 2020 02:06:52: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:06:52: #2 alternative fragment length(s) may be 1,32,45,582 bps INFO @ Tue, 30 Jun 2020 02:06:52: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10_model.r WARNING @ Tue, 30 Jun 2020 02:06:52: #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 02:06:52: #2 You may need to consider one of the other alternative d(s): 1,32,45,582 WARNING @ Tue, 30 Jun 2020 02:06:52: #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 02:06:52: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:06:52: #3 Pre-compute pvalue-qvalue table... INFO @ Tue, 30 Jun 2020 02:06:55: 19000000 INFO @ Tue, 30 Jun 2020 02:06:57: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:07:01: 20000000 INFO @ Tue, 30 Jun 2020 02:07:07: 21000000 INFO @ Tue, 30 Jun 2020 02:07:12: 22000000 INFO @ Tue, 30 Jun 2020 02:07:13: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05_peaks.xls INFO @ Tue, 30 Jun 2020 02:07:13: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:07:13: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.05_summits.bed INFO @ Tue, 30 Jun 2020 02:07:13: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:07:18: #1 tag size is determined as 51 bps INFO @ Tue, 30 Jun 2020 02:07:18: #1 tag size = 51 INFO @ Tue, 30 Jun 2020 02:07:18: #1 total tags in treatment: 22984371 INFO @ Tue, 30 Jun 2020 02:07:18: #1 user defined the maximum tags... INFO @ Tue, 30 Jun 2020 02:07:18: #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 02:07:18: #1 tags after filtering in treatment: 22984310 INFO @ Tue, 30 Jun 2020 02:07:18: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 30 Jun 2020 02:07:18: #1 finished! INFO @ Tue, 30 Jun 2020 02:07:18: #2 Build Peak Model... INFO @ Tue, 30 Jun 2020 02:07:18: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 30 Jun 2020 02:07:20: #2 number of paired peaks: 1009 INFO @ Tue, 30 Jun 2020 02:07:20: start model_add_line... INFO @ Tue, 30 Jun 2020 02:07:20: start X-correlation... INFO @ Tue, 30 Jun 2020 02:07:20: end of X-cor INFO @ Tue, 30 Jun 2020 02:07:20: #2 finished! INFO @ Tue, 30 Jun 2020 02:07:20: #2 predicted fragment length is 1 bps INFO @ Tue, 30 Jun 2020 02:07:20: #2 alternative fragment length(s) may be 1,32,45,582 bps INFO @ Tue, 30 Jun 2020 02:07:20: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20_model.r WARNING @ Tue, 30 Jun 2020 02:07:20: #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 02:07:20: #2 You may need to consider one of the other alternative d(s): 1,32,45,582 WARNING @ Tue, 30 Jun 2020 02:07:20: #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 02:07:20: #3 Call peaks... INFO @ Tue, 30 Jun 2020 02:07:20: #3 Pre-compute pvalue-qvalue table... BigWig に変換しました。 INFO @ Tue, 30 Jun 2020 02:07:29: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:07:46: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10_peaks.xls INFO @ Tue, 30 Jun 2020 02:07:46: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:07:46: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.10_summits.bed INFO @ Tue, 30 Jun 2020 02:07:46: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling INFO @ Tue, 30 Jun 2020 02:07:57: #3 Call peaks for each chromosome... INFO @ Tue, 30 Jun 2020 02:08:14: #4 Write output xls file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20_peaks.xls INFO @ Tue, 30 Jun 2020 02:08:14: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20_peaks.narrowPeak INFO @ Tue, 30 Jun 2020 02:08:14: #4 Write summits bed file... /home/okishinya/chipatlas/results/dm6/SRX193311/SRX193311.20_summits.bed INFO @ Tue, 30 Jun 2020 02:08:14: Done! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling