Job ID = 2010622 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 10,908,382 reads read : 21,816,764 reads written : 10,908,382 reads 0-length : 10,908,382 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: 00:01:18 10908382 reads; of these: 10908382 (100.00%) were unpaired; of these: 6967336 (63.87%) aligned 0 times 3570596 (32.73%) aligned exactly 1 time 370450 (3.40%) aligned >1 times 36.13% overall alignment rate Time searching: 00:01:18 Overall time: 00:01:18 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] 661538 / 3941046 = 0.1679 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 @ Fri, 05 Jul 2019 23:44:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.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 @ Fri, 05 Jul 2019 23:44:39: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:44:39: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.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 @ Fri, 05 Jul 2019 23:44:40: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:44:40: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:49: 1000000 INFO @ Fri, 05 Jul 2019 23:44:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.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 @ Fri, 05 Jul 2019 23:44:50: #1 read tag files... INFO @ Fri, 05 Jul 2019 23:44:50: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 23:44:50: 1000000 INFO @ Fri, 05 Jul 2019 23:44:59: 1000000 INFO @ Fri, 05 Jul 2019 23:45:01: 2000000 INFO @ Fri, 05 Jul 2019 23:45:02: 2000000 INFO @ Fri, 05 Jul 2019 23:45:07: 2000000 INFO @ Fri, 05 Jul 2019 23:45:12: 3000000 INFO @ Fri, 05 Jul 2019 23:45:13: 3000000 INFO @ Fri, 05 Jul 2019 23:45:14: #1 tag size is determined as 31 bps INFO @ Fri, 05 Jul 2019 23:45:14: #1 tag size = 31 INFO @ Fri, 05 Jul 2019 23:45:14: #1 total tags in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:14: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:45:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:45:14: #1 tags after filtering in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:14: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:45:14: #1 finished! INFO @ Fri, 05 Jul 2019 23:45:14: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:45:14: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:45:15: #2 number of paired peaks: 16 WARNING @ Fri, 05 Jul 2019 23:45:15: Too few paired peaks (16) 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 @ Fri, 05 Jul 2019 23:45:15: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 23:45:15: 3000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.05_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/SRX3823272/SRX3823272.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:45:15: #1 tag size is determined as 31 bps INFO @ Fri, 05 Jul 2019 23:45:15: #1 tag size = 31 INFO @ Fri, 05 Jul 2019 23:45:15: #1 total tags in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:15: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:45:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:45:15: #1 tags after filtering in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:15: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:45:15: #1 finished! INFO @ Fri, 05 Jul 2019 23:45:15: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:45:15: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:45:16: #2 number of paired peaks: 16 WARNING @ Fri, 05 Jul 2019 23:45:16: Too few paired peaks (16) 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 @ Fri, 05 Jul 2019 23:45:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.10_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/SRX3823272/SRX3823272.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 23:45:17: #1 tag size is determined as 31 bps INFO @ Fri, 05 Jul 2019 23:45:17: #1 tag size = 31 INFO @ Fri, 05 Jul 2019 23:45:17: #1 total tags in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:17: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 23:45:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 23:45:17: #1 tags after filtering in treatment: 3279508 INFO @ Fri, 05 Jul 2019 23:45:17: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 23:45:17: #1 finished! INFO @ Fri, 05 Jul 2019 23:45:17: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 23:45:17: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 23:45:17: #2 number of paired peaks: 16 WARNING @ Fri, 05 Jul 2019 23:45:17: Too few paired peaks (16) 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 @ Fri, 05 Jul 2019 23:45:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.20_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/SRX3823272/SRX3823272.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3823272/SRX3823272.20_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。