Job ID = 2010948 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 4,804,262 reads read : 9,608,524 reads written : 4,804,262 reads 0-length : 4,804,262 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: 00:00:40 4804262 reads; of these: 4804262 (100.00%) were unpaired; of these: 3701195 (77.04%) aligned 0 times 997445 (20.76%) aligned exactly 1 time 105622 (2.20%) aligned >1 times 22.96% overall alignment rate Time searching: 00:00:40 Overall time: 00:00:40 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_rmdupse_core] 69176 / 1103067 = 0.0627 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 01:24:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.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, 06 Jul 2019 01:24:12: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:12: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.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, 06 Jul 2019 01:24:13: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:13: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.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, 06 Jul 2019 01:24:14: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:24:14: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:24:26: 1000000 INFO @ Sat, 06 Jul 2019 01:24:27: #1 tag size is determined as 65 bps INFO @ Sat, 06 Jul 2019 01:24:27: #1 tag size = 65 INFO @ Sat, 06 Jul 2019 01:24:27: #1 total tags in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:27: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:24:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:24:27: #1 tags after filtering in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:24:27: #1 finished! INFO @ Sat, 06 Jul 2019 01:24:27: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:24:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:24:27: 1000000 INFO @ Sat, 06 Jul 2019 01:24:27: #2 number of paired peaks: 34 WARNING @ Sat, 06 Jul 2019 01:24:27: Too few paired peaks (34) 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, 06 Jul 2019 01:24:27: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:24:27: #1 tag size is determined as 65 bps INFO @ Sat, 06 Jul 2019 01:24:27: #1 tag size = 65 INFO @ Sat, 06 Jul 2019 01:24:27: #1 total tags in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:27: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:24:27: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:24:27: #1 tags after filtering in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:27: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:24:27: #1 finished! INFO @ Sat, 06 Jul 2019 01:24:27: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:24:27: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:24:27: #2 number of paired peaks: 34 WARNING @ Sat, 06 Jul 2019 01:24:27: Too few paired peaks (34) 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, 06 Jul 2019 01:24:27: Process for pairing-model is terminated! INFO @ Sat, 06 Jul 2019 01:24:28: 1000000 INFO @ Sat, 06 Jul 2019 01:24:29: #1 tag size is determined as 65 bps INFO @ Sat, 06 Jul 2019 01:24:29: #1 tag size = 65 INFO @ Sat, 06 Jul 2019 01:24:29: #1 total tags in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:29: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:24:29: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 01:24:29: #1 tags after filtering in treatment: 1033891 INFO @ Sat, 06 Jul 2019 01:24:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:24:29: #1 finished! INFO @ Sat, 06 Jul 2019 01:24:29: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:24:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:24:29: #2 number of paired peaks: 34 WARNING @ Sat, 06 Jul 2019 01:24:29: Too few paired peaks (34) 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, 06 Jul 2019 01:24:29: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.05_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10_*.xls’: No such file or directoryCompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.10_peaks.narrowPeak’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342600/SRX4342600.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling CompletedMACS2peakCalling BigWig に変換しました。