Job ID = 2640796 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 1,459,147 reads read : 1,459,147 reads written : 1,459,147 spots read : 2,216,147 reads read : 2,216,147 reads written : 2,216,147 rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR3354300.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/SRR3354301.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: 00:00:20 3675294 reads; of these: 3675294 (100.00%) were unpaired; of these: 3664435 (99.70%) aligned 0 times 561 (0.02%) aligned exactly 1 time 10298 (0.28%) aligned >1 times 0.30% overall alignment rate Time searching: 00:00:20 Overall time: 00:00:20 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] 6346 / 10859 = 0.5844 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:15:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.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 19:15:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:15:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:15:42: #1 tag size is determined as 76 bps INFO @ Sat, 24 Aug 2019 19:15:42: #1 tag size = 76 INFO @ Sat, 24 Aug 2019 19:15:42: #1 total tags in treatment: 4513 INFO @ Sat, 24 Aug 2019 19:15:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:15:42: #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 19:15:42: #1 tags after filtering in treatment: 4512 INFO @ Sat, 24 Aug 2019 19:15:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:15:42: #1 finished! INFO @ Sat, 24 Aug 2019 19:15:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:15:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:15:42: #2 number of paired peaks: 20 WARNING @ Sat, 24 Aug 2019 19:15:42: Too few paired peaks (20) 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 19:15:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.05_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/SRX1688687/SRX1688687.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:16:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.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 19:16:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:16:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:16:12: #1 tag size is determined as 76 bps INFO @ Sat, 24 Aug 2019 19:16:12: #1 tag size = 76 INFO @ Sat, 24 Aug 2019 19:16:12: #1 total tags in treatment: 4513 INFO @ Sat, 24 Aug 2019 19:16:12: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:16:12: #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 19:16:12: #1 tags after filtering in treatment: 4512 INFO @ Sat, 24 Aug 2019 19:16:12: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:16:12: #1 finished! INFO @ Sat, 24 Aug 2019 19:16:12: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:16:12: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:16:12: #2 number of paired peaks: 20 WARNING @ Sat, 24 Aug 2019 19:16:12: Too few paired peaks (20) 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 19:16:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.10_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/SRX1688687/SRX1688687.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 19:16:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.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 19:16:42: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:16:42: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:16:42: #1 tag size is determined as 76 bps INFO @ Sat, 24 Aug 2019 19:16:42: #1 tag size = 76 INFO @ Sat, 24 Aug 2019 19:16:42: #1 total tags in treatment: 4513 INFO @ Sat, 24 Aug 2019 19:16:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:16:42: #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 19:16:42: #1 tags after filtering in treatment: 4512 INFO @ Sat, 24 Aug 2019 19:16:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:16:42: #1 finished! INFO @ Sat, 24 Aug 2019 19:16:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:16:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:16:42: #2 number of paired peaks: 20 WARNING @ Sat, 24 Aug 2019 19:16:42: Too few paired peaks (20) 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 19:16:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.20_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/SRX1688687/SRX1688687.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX1688687/SRX1688687.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling