Job ID = 2641038 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,641,494 reads read : 45,282,988 reads written : 22,641,494 reads 0-length : 22,641,494 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: 00:04:13 22641494 reads; of these: 22641494 (100.00%) were unpaired; of these: 1631874 (7.21%) aligned 0 times 18273325 (80.71%) aligned exactly 1 time 2736295 (12.09%) aligned >1 times 92.79% overall alignment rate Time searching: 00:04:13 Overall time: 00:04:13 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 12 files... [bam_rmdupse_core] 11608093 / 21009620 = 0.5525 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:06:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.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 21:06:28: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:06:28: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:06:37: 1000000 INFO @ Sat, 24 Aug 2019 21:06:46: 2000000 INFO @ Sat, 24 Aug 2019 21:06:55: 3000000 INFO @ Sat, 24 Aug 2019 21:06:57: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.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 21:06:57: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:06:57: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:04: 4000000 INFO @ Sat, 24 Aug 2019 21:07:06: 1000000 INFO @ Sat, 24 Aug 2019 21:07:13: 5000000 INFO @ Sat, 24 Aug 2019 21:07:14: 2000000 INFO @ Sat, 24 Aug 2019 21:07:22: 3000000 INFO @ Sat, 24 Aug 2019 21:07:23: 6000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:07:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.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 21:07:27: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:07:27: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:07:30: 4000000 INFO @ Sat, 24 Aug 2019 21:07:32: 7000000 INFO @ Sat, 24 Aug 2019 21:07:37: 1000000 INFO @ Sat, 24 Aug 2019 21:07:39: 5000000 INFO @ Sat, 24 Aug 2019 21:07:43: 8000000 INFO @ Sat, 24 Aug 2019 21:07:47: 6000000 INFO @ Sat, 24 Aug 2019 21:07:48: 2000000 INFO @ Sat, 24 Aug 2019 21:07:54: 9000000 INFO @ Sat, 24 Aug 2019 21:07:55: 7000000 INFO @ Sat, 24 Aug 2019 21:07:57: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:07:57: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:07:57: #1 total tags in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:07:57: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:07:57: #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 21:07:57: #1 tags after filtering in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:07:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:07:57: #1 finished! INFO @ Sat, 24 Aug 2019 21:07:57: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:07:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:07:58: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:07:58: 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 21:07:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.05_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/SRX5257235/SRX5257235.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:07:59: 3000000 INFO @ Sat, 24 Aug 2019 21:08:04: 8000000 INFO @ Sat, 24 Aug 2019 21:08:08: 4000000 INFO @ Sat, 24 Aug 2019 21:08:12: 9000000 INFO @ Sat, 24 Aug 2019 21:08:15: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:15: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:15: #1 total tags in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:08:15: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:15: #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 21:08:15: #1 tags after filtering in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:08:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:15: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:15: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:16: 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 21:08:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.10_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/SRX5257235/SRX5257235.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:08:17: 5000000 INFO @ Sat, 24 Aug 2019 21:08:26: 6000000 INFO @ Sat, 24 Aug 2019 21:08:35: 7000000 INFO @ Sat, 24 Aug 2019 21:08:43: 8000000 INFO @ Sat, 24 Aug 2019 21:08:52: 9000000 INFO @ Sat, 24 Aug 2019 21:08:54: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:08:54: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:08:54: #1 total tags in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:08:54: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:08:54: #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 21:08:55: #1 tags after filtering in treatment: 9401527 INFO @ Sat, 24 Aug 2019 21:08:55: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:08:55: #1 finished! INFO @ Sat, 24 Aug 2019 21:08:55: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:08:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:08:55: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:08:55: 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 21:08:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.20_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/SRX5257235/SRX5257235.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257235/SRX5257235.20_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。