Job ID = 2010242 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 6,615,353 reads read : 13,230,706 reads written : 6,615,353 reads 0-length : 6,615,353 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: 00:01:06 6615353 reads; of these: 6615353 (100.00%) were unpaired; of these: 681989 (10.31%) aligned 0 times 5232474 (79.10%) aligned exactly 1 time 700890 (10.59%) aligned >1 times 89.69% overall alignment rate Time searching: 00:01:06 Overall time: 00:01:06 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_rmdupse_core] 1394866 / 5933364 = 0.2351 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 22:00:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.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 @ Fri, 05 Jul 2019 22:00:12: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:00:12: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:00:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.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 @ Fri, 05 Jul 2019 22:00:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:00:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:00:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.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 @ Fri, 05 Jul 2019 22:00:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:00:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:00:20: 1000000 INFO @ Fri, 05 Jul 2019 22:00:21: 1000000 INFO @ Fri, 05 Jul 2019 22:00:22: 1000000 INFO @ Fri, 05 Jul 2019 22:00:27: 2000000 INFO @ Fri, 05 Jul 2019 22:00:28: 2000000 INFO @ Fri, 05 Jul 2019 22:00:29: 2000000 INFO @ Fri, 05 Jul 2019 22:00:35: 3000000 INFO @ Fri, 05 Jul 2019 22:00:36: 3000000 INFO @ Fri, 05 Jul 2019 22:00:37: 3000000 INFO @ Fri, 05 Jul 2019 22:00:42: 4000000 INFO @ Fri, 05 Jul 2019 22:00:43: 4000000 INFO @ Fri, 05 Jul 2019 22:00:44: 4000000 INFO @ Fri, 05 Jul 2019 22:00:46: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:46: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:46: #1 total tags in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:00:46: #1 tags after filtering in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:46: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:47: #2 number of paired peaks: 4 WARNING @ Fri, 05 Jul 2019 22:00:47: Too few paired peaks (4) 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 @ Fri, 05 Jul 2019 22:00:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.05_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/SRX3294610/SRX3294610.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:00:47: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:47: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:47: #1 total tags in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:47: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:47: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:00:47: #1 tags after filtering in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:47: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:47: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:47: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:48: #2 number of paired peaks: 4 WARNING @ Fri, 05 Jul 2019 22:00:48: Too few paired peaks (4) 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 @ Fri, 05 Jul 2019 22:00:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.10_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/SRX3294610/SRX3294610.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:00:48: #1 tag size is determined as 50 bps INFO @ Fri, 05 Jul 2019 22:00:48: #1 tag size = 50 INFO @ Fri, 05 Jul 2019 22:00:48: #1 total tags in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:48: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:00:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:00:48: #1 tags after filtering in treatment: 4538498 INFO @ Fri, 05 Jul 2019 22:00:48: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:00:48: #1 finished! INFO @ Fri, 05 Jul 2019 22:00:48: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:00:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:00:49: #2 number of paired peaks: 4 WARNING @ Fri, 05 Jul 2019 22:00:49: Too few paired peaks (4) 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 @ Fri, 05 Jul 2019 22:00:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.20_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/SRX3294610/SRX3294610.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3294610/SRX3294610.20_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。