Job ID = 2641073 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 28,237,191 reads read : 56,474,382 reads written : 28,237,191 reads 0-length : 28,237,191 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: 00:05:45 28237191 reads; of these: 28237191 (100.00%) were unpaired; of these: 755996 (2.68%) aligned 0 times 24682396 (87.41%) aligned exactly 1 time 2798799 (9.91%) aligned >1 times 97.32% overall alignment rate Time searching: 00:05:45 Overall time: 00:05:45 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 12 files... [bam_rmdupse_core] 16125839 / 27481195 = 0.5868 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:27:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.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 21:27:33: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:27:33: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:27:42: 1000000 INFO @ Sat, 24 Aug 2019 21:27:50: 2000000 INFO @ Sat, 24 Aug 2019 21:27:58: 3000000 INFO @ Sat, 24 Aug 2019 21:28:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.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 21:28:02: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:28:02: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:28:06: 4000000 INFO @ Sat, 24 Aug 2019 21:28:11: 1000000 INFO @ Sat, 24 Aug 2019 21:28:14: 5000000 INFO @ Sat, 24 Aug 2019 21:28:19: 2000000 INFO @ Sat, 24 Aug 2019 21:28:22: 6000000 INFO @ Sat, 24 Aug 2019 21:28:28: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:28:31: 7000000 INFO @ Sat, 24 Aug 2019 21:28:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.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 21:28:32: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:28:32: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:28:36: 4000000 INFO @ Sat, 24 Aug 2019 21:28:39: 8000000 INFO @ Sat, 24 Aug 2019 21:28:41: 1000000 INFO @ Sat, 24 Aug 2019 21:28:44: 5000000 INFO @ Sat, 24 Aug 2019 21:28:47: 9000000 INFO @ Sat, 24 Aug 2019 21:28:48: 2000000 INFO @ Sat, 24 Aug 2019 21:28:52: 6000000 INFO @ Sat, 24 Aug 2019 21:28:55: 10000000 INFO @ Sat, 24 Aug 2019 21:28:56: 3000000 INFO @ Sat, 24 Aug 2019 21:29:01: 7000000 INFO @ Sat, 24 Aug 2019 21:29:03: 4000000 INFO @ Sat, 24 Aug 2019 21:29:04: 11000000 INFO @ Sat, 24 Aug 2019 21:29:07: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:29:07: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:29:07: #1 total tags in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:07: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:29:07: #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 21:29:07: #1 tags after filtering in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:07: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:29:07: #1 finished! INFO @ Sat, 24 Aug 2019 21:29:07: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:29:07: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:29:08: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:29:08: 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 21:29:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.05_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/SRX5257267/SRX5257267.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:29:09: 8000000 INFO @ Sat, 24 Aug 2019 21:29:10: 5000000 INFO @ Sat, 24 Aug 2019 21:29:17: 9000000 INFO @ Sat, 24 Aug 2019 21:29:18: 6000000 INFO @ Sat, 24 Aug 2019 21:29:25: 7000000 INFO @ Sat, 24 Aug 2019 21:29:25: 10000000 INFO @ Sat, 24 Aug 2019 21:29:32: 8000000 INFO @ Sat, 24 Aug 2019 21:29:33: 11000000 INFO @ Sat, 24 Aug 2019 21:29:36: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:29:36: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:29:36: #1 total tags in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:36: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:29:36: #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 21:29:36: #1 tags after filtering in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:36: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:29:36: #1 finished! INFO @ Sat, 24 Aug 2019 21:29:36: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:29:36: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:29:37: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:29:37: 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 21:29:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.10_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/SRX5257267/SRX5257267.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:29:39: 9000000 INFO @ Sat, 24 Aug 2019 21:29:46: 10000000 INFO @ Sat, 24 Aug 2019 21:29:53: 11000000 INFO @ Sat, 24 Aug 2019 21:29:55: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:29:55: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:29:55: #1 total tags in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:55: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:29:55: #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 21:29:55: #1 tags after filtering in treatment: 11355356 INFO @ Sat, 24 Aug 2019 21:29:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:29:55: #1 finished! INFO @ Sat, 24 Aug 2019 21:29:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:29:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:29:56: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:29:56: 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 21:29:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.20_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/SRX5257267/SRX5257267.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257267/SRX5257267.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。