Job ID = 2640884 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,545,863 reads read : 47,091,726 reads written : 23,545,863 reads 0-length : 23,545,863 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: 00:03:52 23545863 reads; of these: 23545863 (100.00%) were unpaired; of these: 3943888 (16.75%) aligned 0 times 17054154 (72.43%) aligned exactly 1 time 2547821 (10.82%) aligned >1 times 83.25% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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] 8846250 / 19601975 = 0.4513 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:52:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.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 19:52:34: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:52:34: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:52:44: 1000000 INFO @ Sat, 24 Aug 2019 19:52:53: 2000000 INFO @ Sat, 24 Aug 2019 19:53:03: 3000000 INFO @ Sat, 24 Aug 2019 19:53:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.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 19:53:04: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:53:04: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:13: 4000000 INFO @ Sat, 24 Aug 2019 19:53:14: 1000000 INFO @ Sat, 24 Aug 2019 19:53:23: 5000000 INFO @ Sat, 24 Aug 2019 19:53:24: 2000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:53:33: 6000000 INFO @ Sat, 24 Aug 2019 19:53:34: 3000000 INFO @ Sat, 24 Aug 2019 19:53:34: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.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 19:53:34: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:53:34: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:53:43: 7000000 INFO @ Sat, 24 Aug 2019 19:53:44: 4000000 INFO @ Sat, 24 Aug 2019 19:53:44: 1000000 INFO @ Sat, 24 Aug 2019 19:53:53: 8000000 INFO @ Sat, 24 Aug 2019 19:53:54: 5000000 INFO @ Sat, 24 Aug 2019 19:53:55: 2000000 INFO @ Sat, 24 Aug 2019 19:54:03: 9000000 INFO @ Sat, 24 Aug 2019 19:54:04: 6000000 INFO @ Sat, 24 Aug 2019 19:54:05: 3000000 INFO @ Sat, 24 Aug 2019 19:54:14: 10000000 INFO @ Sat, 24 Aug 2019 19:54:14: 7000000 INFO @ Sat, 24 Aug 2019 19:54:15: 4000000 INFO @ Sat, 24 Aug 2019 19:54:21: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:54:21: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:54:21: #1 total tags in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:54:21: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:54:21: #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 19:54:22: #1 tags after filtering in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:54:22: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:54:22: #1 finished! INFO @ Sat, 24 Aug 2019 19:54:22: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:54:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:54:22: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:54:22: 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 19:54:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.05_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/SRX3944374/SRX3944374.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:54:24: 8000000 INFO @ Sat, 24 Aug 2019 19:54:26: 5000000 INFO @ Sat, 24 Aug 2019 19:54:34: 9000000 INFO @ Sat, 24 Aug 2019 19:54:36: 6000000 INFO @ Sat, 24 Aug 2019 19:54:44: 10000000 INFO @ Sat, 24 Aug 2019 19:54:46: 7000000 INFO @ Sat, 24 Aug 2019 19:54:52: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:54:52: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:54:52: #1 total tags in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:54:52: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:54:52: #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 19:54:52: #1 tags after filtering in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:54:52: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:54:52: #1 finished! INFO @ Sat, 24 Aug 2019 19:54:52: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:54:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:54:53: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:54:53: 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 19:54:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.10_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/SRX3944374/SRX3944374.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:54:57: 8000000 INFO @ Sat, 24 Aug 2019 19:55:06: 9000000 INFO @ Sat, 24 Aug 2019 19:55:16: 10000000 INFO @ Sat, 24 Aug 2019 19:55:24: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:55:24: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:55:24: #1 total tags in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:55:24: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:55:24: #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 19:55:24: #1 tags after filtering in treatment: 10755725 INFO @ Sat, 24 Aug 2019 19:55:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:55:24: #1 finished! INFO @ Sat, 24 Aug 2019 19:55:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:55:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:55:25: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:55:25: 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 19:55:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.20_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/SRX3944374/SRX3944374.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944374/SRX3944374.20_peaks.narrowPeak’: No such file or directory BedGraph に変換しました。 CompletedMACS2peakCalling BigWig に変換中... BigWig に変換しました。