Job ID = 2003837 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 6,553,169 reads read : 6,553,169 reads written : 6,553,169 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: 00:01:16 6553169 reads; of these: 6553169 (100.00%) were unpaired; of these: 1406649 (21.47%) aligned 0 times 4488979 (68.50%) aligned exactly 1 time 657541 (10.03%) aligned >1 times 78.53% overall alignment rate Time searching: 00:01:16 Overall time: 00:01:16 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] 1423662 / 5146520 = 0.2766 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 14:24:58: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.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 14:24:58: #1 read tag files... INFO @ Fri, 05 Jul 2019 14:24:58: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 14:24:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.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 14:24:59: #1 read tag files... INFO @ Fri, 05 Jul 2019 14:24:59: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 14:25:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.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 14:25:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 14:25:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 14:25:07: 1000000 INFO @ Fri, 05 Jul 2019 14:25:08: 1000000 INFO @ Fri, 05 Jul 2019 14:25:10: 1000000 INFO @ Fri, 05 Jul 2019 14:25:15: 2000000 INFO @ Fri, 05 Jul 2019 14:25:16: 2000000 INFO @ Fri, 05 Jul 2019 14:25:20: 2000000 INFO @ Fri, 05 Jul 2019 14:25:24: 3000000 INFO @ Fri, 05 Jul 2019 14:25:25: 3000000 INFO @ Fri, 05 Jul 2019 14:25:30: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 14:25:30: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 14:25:30: #1 total tags in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:30: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 14:25:30: #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 14:25:30: 3000000 INFO @ Fri, 05 Jul 2019 14:25:30: #1 tags after filtering in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:30: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 14:25:30: #1 finished! INFO @ Fri, 05 Jul 2019 14:25:30: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 14:25:30: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 14:25:30: #2 number of paired peaks: 23 WARNING @ Fri, 05 Jul 2019 14:25:30: Too few paired peaks (23) 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 14:25:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.05_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/ERX016947/ERX016947.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 14:25:31: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 14:25:31: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 14:25:31: #1 total tags in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 14:25:31: #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 14:25:31: #1 tags after filtering in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:31: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 14:25:31: #1 finished! INFO @ Fri, 05 Jul 2019 14:25:31: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 14:25:31: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 14:25:31: #2 number of paired peaks: 23 WARNING @ Fri, 05 Jul 2019 14:25:31: Too few paired peaks (23) 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 14:25:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.10_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/ERX016947/ERX016947.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 14:25:37: #1 tag size is determined as 40 bps INFO @ Fri, 05 Jul 2019 14:25:37: #1 tag size = 40 INFO @ Fri, 05 Jul 2019 14:25:37: #1 total tags in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:37: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 14:25:37: #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 14:25:37: #1 tags after filtering in treatment: 3722858 INFO @ Fri, 05 Jul 2019 14:25:37: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 14:25:37: #1 finished! INFO @ Fri, 05 Jul 2019 14:25:37: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 14:25:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 14:25:37: #2 number of paired peaks: 23 WARNING @ Fri, 05 Jul 2019 14:25:37: Too few paired peaks (23) 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 14:25:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.20_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/ERX016947/ERX016947.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX016947/ERX016947.20_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。