Job ID = 2641046 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 78,296,266 reads read : 156,592,532 reads written : 78,296,266 reads 0-length : 78,296,266 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: 00:00:00 Multiseed full-index search: 00:13:43 78296266 reads; of these: 78296266 (100.00%) were unpaired; of these: 2237828 (2.86%) aligned 0 times 69925153 (89.31%) aligned exactly 1 time 6133285 (7.83%) aligned >1 times 97.14% overall alignment rate Time searching: 00:13:43 Overall time: 00:13:43 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 32 files... [bam_rmdupse_core] 57326907 / 76058438 = 0.7537 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:45:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.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 21:45:15: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:45:15: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:45:23: 1000000 INFO @ Sat, 24 Aug 2019 21:45:31: 2000000 INFO @ Sat, 24 Aug 2019 21:45:40: 3000000 INFO @ Sat, 24 Aug 2019 21:45:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.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 21:45:44: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:45:44: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:45:49: 4000000 INFO @ Sat, 24 Aug 2019 21:45:51: 1000000 INFO @ Sat, 24 Aug 2019 21:45:58: 5000000 INFO @ Sat, 24 Aug 2019 21:45:59: 2000000 INFO @ Sat, 24 Aug 2019 21:46:05: 6000000 INFO @ Sat, 24 Aug 2019 21:46:09: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:46:13: 7000000 INFO @ Sat, 24 Aug 2019 21:46:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.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 21:46:14: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:46:14: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:46:18: 4000000 INFO @ Sat, 24 Aug 2019 21:46:21: 8000000 INFO @ Sat, 24 Aug 2019 21:46:22: 1000000 INFO @ Sat, 24 Aug 2019 21:46:26: 5000000 INFO @ Sat, 24 Aug 2019 21:46:29: 9000000 INFO @ Sat, 24 Aug 2019 21:46:30: 2000000 INFO @ Sat, 24 Aug 2019 21:46:34: 6000000 INFO @ Sat, 24 Aug 2019 21:46:37: 10000000 INFO @ Sat, 24 Aug 2019 21:46:38: 3000000 INFO @ Sat, 24 Aug 2019 21:46:42: 7000000 INFO @ Sat, 24 Aug 2019 21:46:46: 11000000 INFO @ Sat, 24 Aug 2019 21:46:47: 4000000 INFO @ Sat, 24 Aug 2019 21:46:50: 8000000 INFO @ Sat, 24 Aug 2019 21:46:54: 12000000 INFO @ Sat, 24 Aug 2019 21:46:55: 5000000 INFO @ Sat, 24 Aug 2019 21:46:57: 9000000 INFO @ Sat, 24 Aug 2019 21:47:02: 13000000 INFO @ Sat, 24 Aug 2019 21:47:02: 6000000 INFO @ Sat, 24 Aug 2019 21:47:05: 10000000 INFO @ Sat, 24 Aug 2019 21:47:10: 7000000 INFO @ Sat, 24 Aug 2019 21:47:11: 14000000 INFO @ Sat, 24 Aug 2019 21:47:13: 11000000 INFO @ Sat, 24 Aug 2019 21:47:18: 8000000 INFO @ Sat, 24 Aug 2019 21:47:19: 15000000 INFO @ Sat, 24 Aug 2019 21:47:21: 12000000 INFO @ Sat, 24 Aug 2019 21:47:26: 9000000 INFO @ Sat, 24 Aug 2019 21:47:27: 16000000 INFO @ Sat, 24 Aug 2019 21:47:29: 13000000 INFO @ Sat, 24 Aug 2019 21:47:33: 10000000 INFO @ Sat, 24 Aug 2019 21:47:34: 17000000 INFO @ Sat, 24 Aug 2019 21:47:37: 14000000 INFO @ Sat, 24 Aug 2019 21:47:41: 11000000 INFO @ Sat, 24 Aug 2019 21:47:42: 18000000 INFO @ Sat, 24 Aug 2019 21:47:45: 15000000 INFO @ Sat, 24 Aug 2019 21:47:48: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:47:48: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:47:48: #1 total tags in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:47:48: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:47:48: #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 21:47:48: #1 tags after filtering in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:47:48: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:47:48: #1 finished! INFO @ Sat, 24 Aug 2019 21:47:48: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:47:49: 12000000 INFO @ Sat, 24 Aug 2019 21:47:50: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:47:50: 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 21:47:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.05_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/SRX5257242/SRX5257242.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:47:52: 16000000 INFO @ Sat, 24 Aug 2019 21:47:57: 13000000 INFO @ Sat, 24 Aug 2019 21:48:00: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 21:48:05: 14000000 INFO @ Sat, 24 Aug 2019 21:48:08: 18000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 21:48:13: 15000000 INFO @ Sat, 24 Aug 2019 21:48:14: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:48:14: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:48:14: #1 total tags in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:48:14: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:48:14: #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 21:48:15: #1 tags after filtering in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:48:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:48:15: #1 finished! INFO @ Sat, 24 Aug 2019 21:48:15: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:48:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:48:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:48:16: 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 21:48:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.10_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/SRX5257242/SRX5257242.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:48:20: 16000000 INFO @ Sat, 24 Aug 2019 21:48:28: 17000000 INFO @ Sat, 24 Aug 2019 21:48:35: 18000000 INFO @ Sat, 24 Aug 2019 21:48:41: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:48:41: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:48:41: #1 total tags in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:48:41: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:48:41: #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 21:48:41: #1 tags after filtering in treatment: 18731531 INFO @ Sat, 24 Aug 2019 21:48:41: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:48:41: #1 finished! INFO @ Sat, 24 Aug 2019 21:48:41: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:48:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:48:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:48:42: 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 21:48:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257242/SRX5257242.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling