Job ID = 4288970 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 8,487,890 reads read : 16,975,780 reads written : 8,487,890 reads 0-length : 8,487,890 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: 00:01:38 8487890 reads; of these: 8487890 (100.00%) were unpaired; of these: 443561 (5.23%) aligned 0 times 6384761 (75.22%) aligned exactly 1 time 1659568 (19.55%) aligned >1 times 94.77% overall alignment rate Time searching: 00:01:38 Overall time: 00:01:38 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] 3254676 / 8044329 = 0.4046 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 12:58:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.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 12:58:43: #1 read tag files... INFO @ Tue, 10 Dec 2019 12:58:43: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 12:58:54: 1000000 INFO @ Tue, 10 Dec 2019 12:59:05: 2000000 INFO @ Tue, 10 Dec 2019 12:59:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.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 12:59:12: #1 read tag files... INFO @ Tue, 10 Dec 2019 12:59:12: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 12:59:14: 3000000 INFO @ Tue, 10 Dec 2019 12:59:23: 1000000 INFO @ Tue, 10 Dec 2019 12:59:24: 4000000 INFO @ Tue, 10 Dec 2019 12:59:31: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 12:59:31: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 12:59:31: #1 total tags in treatment: 4789653 INFO @ Tue, 10 Dec 2019 12:59:31: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 12:59:31: #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 12:59:31: #1 tags after filtering in treatment: 4789653 INFO @ Tue, 10 Dec 2019 12:59:31: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 12:59:31: #1 finished! INFO @ Tue, 10 Dec 2019 12:59:31: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 12:59:31: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 12:59:32: #2 number of paired peaks: 23 WARNING @ Tue, 10 Dec 2019 12:59:32: Too few paired peaks (23) 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 12:59:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.05_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/SRX2354011/SRX2354011.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 12:59:33: 2000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 12:59:42: 3000000 INFO @ Tue, 10 Dec 2019 12:59:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.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 12:59:42: #1 read tag files... INFO @ Tue, 10 Dec 2019 12:59:42: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 12:59:51: 4000000 INFO @ Tue, 10 Dec 2019 12:59:52: 1000000 INFO @ Tue, 10 Dec 2019 12:59:58: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 12:59:58: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 12:59:58: #1 total tags in treatment: 4789653 INFO @ Tue, 10 Dec 2019 12:59:58: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 12:59:58: #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 12:59:58: #1 tags after filtering in treatment: 4789653 INFO @ Tue, 10 Dec 2019 12:59:58: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 12:59:58: #1 finished! INFO @ Tue, 10 Dec 2019 12:59:58: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 12:59:58: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 12:59:59: #2 number of paired peaks: 23 WARNING @ Tue, 10 Dec 2019 12:59:59: Too few paired peaks (23) 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 12:59:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.10_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/SRX2354011/SRX2354011.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 13:00:02: 2000000 INFO @ Tue, 10 Dec 2019 13:00:13: 3000000 INFO @ Tue, 10 Dec 2019 13:00:25: 4000000 INFO @ Tue, 10 Dec 2019 13:00:33: #1 tag size is determined as 50 bps INFO @ Tue, 10 Dec 2019 13:00:33: #1 tag size = 50 INFO @ Tue, 10 Dec 2019 13:00:33: #1 total tags in treatment: 4789653 INFO @ Tue, 10 Dec 2019 13:00:33: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 13:00:33: #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 13:00:34: #1 tags after filtering in treatment: 4789653 INFO @ Tue, 10 Dec 2019 13:00:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 13:00:34: #1 finished! INFO @ Tue, 10 Dec 2019 13:00:34: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 13:00:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 13:00:34: #2 number of paired peaks: 23 WARNING @ Tue, 10 Dec 2019 13:00:34: Too few paired peaks (23) 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 13:00:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.20_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/SRX2354011/SRX2354011.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX2354011/SRX2354011.20_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。