Job ID = 2010384 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,003,734 reads read : 5,003,734 reads written : 5,003,734 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR1029214.sra.cache’: 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: 00:00:40 5003734 reads; of these: 5003734 (100.00%) were unpaired; of these: 285362 (5.70%) aligned 0 times 3776069 (75.47%) aligned exactly 1 time 942303 (18.83%) aligned >1 times 94.30% overall alignment rate Time searching: 00:00:40 Overall time: 00:00:40 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] 1537651 / 4718372 = 0.3259 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 22:24:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.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 22:24:26: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:24:26: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:24:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.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 22:24:27: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:24:27: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:24:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.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 22:24:28: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:24:28: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:24:33: 1000000 INFO @ Fri, 05 Jul 2019 22:24:36: 1000000 INFO @ Fri, 05 Jul 2019 22:24:36: 1000000 INFO @ Fri, 05 Jul 2019 22:24:39: 2000000 INFO @ Fri, 05 Jul 2019 22:24:43: 2000000 INFO @ Fri, 05 Jul 2019 22:24:44: 2000000 INFO @ Fri, 05 Jul 2019 22:24:45: 3000000 INFO @ Fri, 05 Jul 2019 22:24:46: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 22:24:46: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 22:24:46: #1 total tags in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:46: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:46: #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 22:24:46: #1 tags after filtering in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:46: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:46: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:46: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:46: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:47: #2 number of paired peaks: 29 WARNING @ Fri, 05 Jul 2019 22:24:47: Too few paired peaks (29) 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 22:24:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.05_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/SRX377057/SRX377057.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:24:50: 3000000 INFO @ Fri, 05 Jul 2019 22:24:51: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 22:24:51: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 22:24:51: #1 total tags in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:51: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:51: #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 22:24:51: #1 tags after filtering in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:51: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:51: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:51: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:51: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:51: 3000000 INFO @ Fri, 05 Jul 2019 22:24:52: #2 number of paired peaks: 29 WARNING @ Fri, 05 Jul 2019 22:24:52: Too few paired peaks (29) 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 22:24:52: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 22:24:53: #1 tag size is determined as 36 bps INFO @ Fri, 05 Jul 2019 22:24:53: #1 tag size = 36 INFO @ Fri, 05 Jul 2019 22:24:53: #1 total tags in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:53: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:24:53: #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 22:24:53: #1 tags after filtering in treatment: 3180721 INFO @ Fri, 05 Jul 2019 22:24:53: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:24:53: #1 finished! INFO @ Fri, 05 Jul 2019 22:24:53: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:24:53: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:24:53: #2 number of paired peaks: 29 WARNING @ Fri, 05 Jul 2019 22:24:53: Too few paired peaks (29) 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 22:24:53: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms)needLargeMem: trying to allocate 0 bytes (limit: 17179869184): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10_model.r’rm: : No such file or directorycannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20_*.xls’ : No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.20_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377057/SRX377057.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling BigWig に変換しました。