Job ID = 2641220 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 15,846,651 reads read : 15,846,651 reads written : 15,846,651 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: 00:02:30 15846651 reads; of these: 15846651 (100.00%) were unpaired; of these: 3122443 (19.70%) aligned 0 times 11694772 (73.80%) aligned exactly 1 time 1029436 (6.50%) aligned >1 times 80.30% overall alignment rate Time searching: 00:02:30 Overall time: 00:02:30 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 8 files... [bam_rmdupse_core] 7596442 / 12724208 = 0.5970 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:59:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.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 21:59:54: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:59:54: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:00:01: 1000000 INFO @ Sat, 24 Aug 2019 22:00:09: 2000000 INFO @ Sat, 24 Aug 2019 22:00:17: 3000000 INFO @ Sat, 24 Aug 2019 22:00:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.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 22:00:23: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:00:23: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:00:24: 4000000 INFO @ Sat, 24 Aug 2019 22:00:30: 1000000 INFO @ Sat, 24 Aug 2019 22:00:32: 5000000 INFO @ Sat, 24 Aug 2019 22:00:33: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 22:00:33: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 22:00:33: #1 total tags in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:00:33: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:00:33: #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 22:00:33: #1 tags after filtering in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:00:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:00:33: #1 finished! INFO @ Sat, 24 Aug 2019 22:00:33: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:00:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:00:33: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:00:33: 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 22:00:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.05_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/SRX5820054/SRX5820054.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:00:37: 2000000 INFO @ Sat, 24 Aug 2019 22:00:44: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:00:51: 4000000 INFO @ Sat, 24 Aug 2019 22:00:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.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 22:00:53: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:00:53: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:00:58: 5000000 INFO @ Sat, 24 Aug 2019 22:00:59: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 22:00:59: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 22:00:59: #1 total tags in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:00:59: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:00:59: #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 22:00:59: #1 tags after filtering in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:00:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:00:59: #1 finished! INFO @ Sat, 24 Aug 2019 22:00:59: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:00:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:00:59: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:00:59: 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 22:00:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.10_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/SRX5820054/SRX5820054.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:01:01: 1000000 INFO @ Sat, 24 Aug 2019 22:01:09: 2000000 INFO @ Sat, 24 Aug 2019 22:01:17: 3000000 INFO @ Sat, 24 Aug 2019 22:01:24: 4000000 INFO @ Sat, 24 Aug 2019 22:01:32: 5000000 INFO @ Sat, 24 Aug 2019 22:01:33: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 22:01:33: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 22:01:33: #1 total tags in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:01:33: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:01:33: #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 22:01:33: #1 tags after filtering in treatment: 5127766 INFO @ Sat, 24 Aug 2019 22:01:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:01:33: #1 finished! INFO @ Sat, 24 Aug 2019 22:01:33: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:01:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:01:33: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:01:33: 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 22:01:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.20_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/SRX5820054/SRX5820054.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5820054/SRX5820054.20_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。