Job ID = 2641068 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 13,820,651 reads read : 27,641,302 reads written : 13,820,651 reads 0-length : 13,820,651 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: 00:02:20 13820651 reads; of these: 13820651 (100.00%) were unpaired; of these: 246587 (1.78%) aligned 0 times 12044363 (87.15%) aligned exactly 1 time 1529701 (11.07%) aligned >1 times 98.22% overall alignment rate Time searching: 00:02:20 Overall time: 00:02:20 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_sort_core] merging from 8 files... [bam_rmdupse_core] 6226673 / 13574064 = 0.4587 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:14:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.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 21:14:52: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:14:52: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:14:59: 1000000 INFO @ Sat, 24 Aug 2019 21:15:06: 2000000 INFO @ Sat, 24 Aug 2019 21:15:13: 3000000 INFO @ Sat, 24 Aug 2019 21:15:20: 4000000 INFO @ Sat, 24 Aug 2019 21:15:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.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 21:15:21: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:15:21: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:15:27: 5000000 INFO @ Sat, 24 Aug 2019 21:15:27: 1000000 INFO @ Sat, 24 Aug 2019 21:15:34: 6000000 INFO @ Sat, 24 Aug 2019 21:15:34: 2000000 INFO @ Sat, 24 Aug 2019 21:15:41: 3000000 INFO @ Sat, 24 Aug 2019 21:15:41: 7000000 INFO @ Sat, 24 Aug 2019 21:15:43: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:15:43: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:15:43: #1 total tags in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:15:43: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:15:43: #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 21:15:43: #1 tags after filtering in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:15:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:15:43: #1 finished! INFO @ Sat, 24 Aug 2019 21:15:43: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:15:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:15:44: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:15:44: 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 21:15:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.05_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/SRX5257262/SRX5257262.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:15:47: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:15:51: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.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 21:15:51: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:15:51: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:15:53: 5000000 INFO @ Sat, 24 Aug 2019 21:15:58: 1000000 INFO @ Sat, 24 Aug 2019 21:16:00: 6000000 INFO @ Sat, 24 Aug 2019 21:16:06: 2000000 INFO @ Sat, 24 Aug 2019 21:16:06: 7000000 INFO @ Sat, 24 Aug 2019 21:16:08: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:16:08: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:16:08: #1 total tags in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:16:08: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:16:08: #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 21:16:08: #1 tags after filtering in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:16:08: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:16:08: #1 finished! INFO @ Sat, 24 Aug 2019 21:16:08: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:16:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:16:09: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:16:09: 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 21:16:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.10_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/SRX5257262/SRX5257262.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:16:13: 3000000 INFO @ Sat, 24 Aug 2019 21:16:20: 4000000 INFO @ Sat, 24 Aug 2019 21:16:27: 5000000 INFO @ Sat, 24 Aug 2019 21:16:34: 6000000 INFO @ Sat, 24 Aug 2019 21:16:40: 7000000 INFO @ Sat, 24 Aug 2019 21:16:43: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:16:43: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:16:43: #1 total tags in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:16:43: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:16:43: #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 21:16:43: #1 tags after filtering in treatment: 7347391 INFO @ Sat, 24 Aug 2019 21:16:43: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:16:43: #1 finished! INFO @ Sat, 24 Aug 2019 21:16:43: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:16:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:16:44: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:16:44: 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 21:16:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.20_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/SRX5257262/SRX5257262.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257262/SRX5257262.20_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。