Job ID = 2641078 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 16,417,106 reads read : 32,834,212 reads written : 16,417,106 reads 0-length : 16,417,106 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: 00:03:14 16417106 reads; of these: 16417106 (100.00%) were unpaired; of these: 921781 (5.61%) aligned 0 times 13733536 (83.65%) aligned exactly 1 time 1761789 (10.73%) aligned >1 times 94.39% overall alignment rate Time searching: 00:03:14 Overall time: 00:03:14 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] 8120664 / 15495325 = 0.5241 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:21:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.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 21:21:51: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:21:51: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:21:58: 1000000 INFO @ Sat, 24 Aug 2019 21:22:04: 2000000 INFO @ Sat, 24 Aug 2019 21:22:11: 3000000 INFO @ Sat, 24 Aug 2019 21:22:17: 4000000 INFO @ Sat, 24 Aug 2019 21:22:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.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 21:22:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:22:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:22:23: 5000000 INFO @ Sat, 24 Aug 2019 21:22:26: 1000000 INFO @ Sat, 24 Aug 2019 21:22:29: 6000000 INFO @ Sat, 24 Aug 2019 21:22:32: 2000000 INFO @ Sat, 24 Aug 2019 21:22:36: 7000000 INFO @ Sat, 24 Aug 2019 21:22:38: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:22:38: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:22:38: #1 total tags in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:22:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:22:38: #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 21:22:38: #1 tags after filtering in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:22:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:22:38: #1 finished! INFO @ Sat, 24 Aug 2019 21:22:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:22:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:22:38: 3000000 INFO @ Sat, 24 Aug 2019 21:22:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:22:39: 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 21:22:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.05_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/SRX5257272/SRX5257272.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:22:44: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:22:50: 5000000 INFO @ Sat, 24 Aug 2019 21:22:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.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 21:22:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:22:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:22:56: 6000000 INFO @ Sat, 24 Aug 2019 21:22:57: 1000000 INFO @ Sat, 24 Aug 2019 21:23:02: 7000000 INFO @ Sat, 24 Aug 2019 21:23:04: 2000000 INFO @ Sat, 24 Aug 2019 21:23:04: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:23:04: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:23:04: #1 total tags in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:23:04: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:23:04: #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 21:23:04: #1 tags after filtering in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:23:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:23:04: #1 finished! INFO @ Sat, 24 Aug 2019 21:23:04: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:23:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:23:05: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:23:05: 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 21:23:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.10_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/SRX5257272/SRX5257272.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:23:11: 3000000 INFO @ Sat, 24 Aug 2019 21:23:17: 4000000 INFO @ Sat, 24 Aug 2019 21:23:23: 5000000 INFO @ Sat, 24 Aug 2019 21:23:30: 6000000 INFO @ Sat, 24 Aug 2019 21:23:36: 7000000 INFO @ Sat, 24 Aug 2019 21:23:38: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:23:38: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:23:38: #1 total tags in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:23:38: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:23:38: #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 21:23:38: #1 tags after filtering in treatment: 7374661 INFO @ Sat, 24 Aug 2019 21:23:38: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:23:38: #1 finished! INFO @ Sat, 24 Aug 2019 21:23:38: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:23:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:23:39: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:23:39: 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 21:23:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.20_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/SRX5257272/SRX5257272.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257272/SRX5257272.20_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。