Job ID = 2641056 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 27,982,359 reads read : 55,964,718 reads written : 27,982,359 reads 0-length : 27,982,359 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: 00:04:59 27982359 reads; of these: 27982359 (100.00%) were unpaired; of these: 5596801 (20.00%) aligned 0 times 20959014 (74.90%) aligned exactly 1 time 1426544 (5.10%) aligned >1 times 80.00% overall alignment rate Time searching: 00:04:59 Overall time: 00:04:59 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] 14810998 / 22385558 = 0.6616 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:18:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.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 21:18:37: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:18:37: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:18:44: 1000000 INFO @ Sat, 24 Aug 2019 21:18:51: 2000000 INFO @ Sat, 24 Aug 2019 21:18:59: 3000000 INFO @ Sat, 24 Aug 2019 21:19:06: 4000000 INFO @ Sat, 24 Aug 2019 21:19:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.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 21:19:07: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:19:07: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:19:13: 5000000 INFO @ Sat, 24 Aug 2019 21:19:13: 1000000 INFO @ Sat, 24 Aug 2019 21:19:20: 2000000 INFO @ Sat, 24 Aug 2019 21:19:21: 6000000 INFO @ Sat, 24 Aug 2019 21:19:27: 3000000 INFO @ Sat, 24 Aug 2019 21:19:29: 7000000 INFO @ Sat, 24 Aug 2019 21:19:33: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:19:33: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:19:33: #1 total tags in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:19:33: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:19:33: #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 21:19:33: #1 tags after filtering in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:19:33: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:19:33: #1 finished! INFO @ Sat, 24 Aug 2019 21:19:33: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:19:33: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:19:34: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:19:34: 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 21:19:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.05_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/SRX5257251/SRX5257251.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:19:34: 4000000 INFO @ Sat, 24 Aug 2019 21:19:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.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 21:19:37: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:19:37: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:19:41: 5000000 INFO @ Sat, 24 Aug 2019 21:19:46: 1000000 INFO @ Sat, 24 Aug 2019 21:19:48: 6000000 INFO @ Sat, 24 Aug 2019 21:19:54: 7000000 INFO @ Sat, 24 Aug 2019 21:19:55: 2000000 INFO @ Sat, 24 Aug 2019 21:19:58: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:19:58: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:19:58: #1 total tags in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:19:58: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:19:58: #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 21:19:59: #1 tags after filtering in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:19:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:19:59: #1 finished! INFO @ Sat, 24 Aug 2019 21:19:59: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:19:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:19:59: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:19:59: 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 21:19:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.10_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/SRX5257251/SRX5257251.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:20:03: 3000000 INFO @ Sat, 24 Aug 2019 21:20:12: 4000000 INFO @ Sat, 24 Aug 2019 21:20:20: 5000000 INFO @ Sat, 24 Aug 2019 21:20:28: 6000000 INFO @ Sat, 24 Aug 2019 21:20:37: 7000000 INFO @ Sat, 24 Aug 2019 21:20:42: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:20:42: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:20:42: #1 total tags in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:20:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:20:42: #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 21:20:42: #1 tags after filtering in treatment: 7574560 INFO @ Sat, 24 Aug 2019 21:20:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:20:42: #1 finished! INFO @ Sat, 24 Aug 2019 21:20:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:20:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:20:42: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:20:42: 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 21:20:42: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.20_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/SRX5257251/SRX5257251.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257251/SRX5257251.20_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。