Job ID = 4289543 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 6,174,675 reads read : 6,174,675 reads written : 6,174,675 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 6174675 reads; of these: 6174675 (100.00%) were unpaired; of these: 3504971 (56.76%) aligned 0 times 1989517 (32.22%) aligned exactly 1 time 680187 (11.02%) aligned >1 times 43.24% 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] 1800702 / 2669704 = 0.6745 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:44:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.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 @ Tue, 10 Dec 2019 14:44:54: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:44:54: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:45:01: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 14:45:01: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 14:45:01: #1 total tags in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:45:01: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:45:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:45:01: #1 tags after filtering in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:45:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:45:01: #1 finished! INFO @ Tue, 10 Dec 2019 14:45:01: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:45:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:45:01: #2 number of paired peaks: 33 WARNING @ Tue, 10 Dec 2019 14:45:01: Too few paired peaks (33) 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 @ Tue, 10 Dec 2019 14:45:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.05_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/SRX6932536/SRX6932536.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:45:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.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 @ Tue, 10 Dec 2019 14:45:24: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:45:24: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:45:30: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 14:45:30: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 14:45:30: #1 total tags in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:45:30: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:45:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:45:30: #1 tags after filtering in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:45:30: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:45:30: #1 finished! INFO @ Tue, 10 Dec 2019 14:45:30: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:45:30: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:45:30: #2 number of paired peaks: 33 WARNING @ Tue, 10 Dec 2019 14:45:30: Too few paired peaks (33) 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 @ Tue, 10 Dec 2019 14:45:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.10_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/SRX6932536/SRX6932536.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:45:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.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 @ Tue, 10 Dec 2019 14:45:54: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:45:54: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:46:00: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 14:46:00: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 14:46:00: #1 total tags in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:46:00: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:46:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:46:00: #1 tags after filtering in treatment: 869002 INFO @ Tue, 10 Dec 2019 14:46:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:46:00: #1 finished! INFO @ Tue, 10 Dec 2019 14:46:00: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:46:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:46:00: #2 number of paired peaks: 33 WARNING @ Tue, 10 Dec 2019 14:46:00: Too few paired peaks (33) 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 @ Tue, 10 Dec 2019 14:46:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.20_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/SRX6932536/SRX6932536.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932536/SRX6932536.20_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。