Job ID = 2641088 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 67,026,939 reads read : 67,026,939 reads written : 67,026,939 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 00:12:13 67026939 reads; of these: 67026939 (100.00%) were unpaired; of these: 2759804 (4.12%) aligned 0 times 51836180 (77.34%) aligned exactly 1 time 12430955 (18.55%) aligned >1 times 95.88% overall alignment rate Time searching: 00:12:14 Overall time: 00:12:14 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 28 files... [bam_rmdupse_core] 46706269 / 64267135 = 0.7268 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:03:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 22:03:06: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:03:06: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:03:13: 1000000 INFO @ Sat, 24 Aug 2019 22:03:19: 2000000 INFO @ Sat, 24 Aug 2019 22:03:26: 3000000 INFO @ Sat, 24 Aug 2019 22:03:32: 4000000 INFO @ Sat, 24 Aug 2019 22:03:36: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 22:03:36: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:03:36: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:03:38: 5000000 INFO @ Sat, 24 Aug 2019 22:03:43: 1000000 INFO @ Sat, 24 Aug 2019 22:03:45: 6000000 INFO @ Sat, 24 Aug 2019 22:03:50: 2000000 INFO @ Sat, 24 Aug 2019 22:03:51: 7000000 INFO @ Sat, 24 Aug 2019 22:03:57: 3000000 INFO @ Sat, 24 Aug 2019 22:03:58: 8000000 INFO @ Sat, 24 Aug 2019 22:04:04: 9000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:04:05: 4000000 INFO @ Sat, 24 Aug 2019 22:04:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.bam'] # control file = None # effective genome size = 1.21e+07 # 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 @ Sat, 24 Aug 2019 22:04:06: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:04:06: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:04:10: 10000000 INFO @ Sat, 24 Aug 2019 22:04:12: 5000000 INFO @ Sat, 24 Aug 2019 22:04:14: 1000000 INFO @ Sat, 24 Aug 2019 22:04:17: 11000000 INFO @ Sat, 24 Aug 2019 22:04:19: 6000000 INFO @ Sat, 24 Aug 2019 22:04:21: 2000000 INFO @ Sat, 24 Aug 2019 22:04:23: 12000000 INFO @ Sat, 24 Aug 2019 22:04:26: 7000000 INFO @ Sat, 24 Aug 2019 22:04:28: 3000000 INFO @ Sat, 24 Aug 2019 22:04:29: 13000000 INFO @ Sat, 24 Aug 2019 22:04:33: 8000000 INFO @ Sat, 24 Aug 2019 22:04:35: 4000000 INFO @ Sat, 24 Aug 2019 22:04:36: 14000000 INFO @ Sat, 24 Aug 2019 22:04:41: 9000000 INFO @ Sat, 24 Aug 2019 22:04:42: 5000000 INFO @ Sat, 24 Aug 2019 22:04:42: 15000000 INFO @ Sat, 24 Aug 2019 22:04:48: 10000000 INFO @ Sat, 24 Aug 2019 22:04:48: 16000000 INFO @ Sat, 24 Aug 2019 22:04:49: 6000000 INFO @ Sat, 24 Aug 2019 22:04:55: 17000000 INFO @ Sat, 24 Aug 2019 22:04:55: 11000000 INFO @ Sat, 24 Aug 2019 22:04:56: 7000000 INFO @ Sat, 24 Aug 2019 22:04:58: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:04:58: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:04:58: #1 total tags in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:04:58: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:04:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:04:59: #1 tags after filtering in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:04:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:04:59: #1 finished! INFO @ Sat, 24 Aug 2019 22:04:59: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:04:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:05:00: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:05:00: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 22:05:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:05:02: 12000000 INFO @ Sat, 24 Aug 2019 22:05:03: 8000000 INFO @ Sat, 24 Aug 2019 22:05:09: 13000000 INFO @ Sat, 24 Aug 2019 22:05:10: 9000000 INFO @ Sat, 24 Aug 2019 22:05:16: 14000000 INFO @ Sat, 24 Aug 2019 22:05:17: 10000000 INFO @ Sat, 24 Aug 2019 22:05:23: 15000000 INFO @ Sat, 24 Aug 2019 22:05:24: 11000000 INFO @ Sat, 24 Aug 2019 22:05:30: 16000000 INFO @ Sat, 24 Aug 2019 22:05:31: 12000000 INFO @ Sat, 24 Aug 2019 22:05:38: 17000000 INFO @ Sat, 24 Aug 2019 22:05:38: 13000000 INFO @ Sat, 24 Aug 2019 22:05:42: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:05:42: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:05:42: #1 total tags in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:05:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:05:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:05:42: #1 tags after filtering in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:05:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:05:42: #1 finished! INFO @ Sat, 24 Aug 2019 22:05:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:05:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:05:43: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:05:43: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 22:05:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:05:45: 14000000 INFO @ Sat, 24 Aug 2019 22:05:52: 15000000 INFO @ Sat, 24 Aug 2019 22:05:59: 16000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:06:05: 17000000 INFO @ Sat, 24 Aug 2019 22:06:10: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:06:10: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:06:10: #1 total tags in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:06:10: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:06:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 22:06:10: #1 tags after filtering in treatment: 17560866 INFO @ Sat, 24 Aug 2019 22:06:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:06:10: #1 finished! INFO @ Sat, 24 Aug 2019 22:06:10: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:06:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:06:11: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:06:11: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 24 Aug 2019 22:06:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431191/SRX5431191.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。