Job ID = 4289534 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 19,721,258 reads read : 19,721,258 reads written : 19,721,258 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: 00:03:43 19721258 reads; of these: 19721258 (100.00%) were unpaired; of these: 1697255 (8.61%) aligned 0 times 16951615 (85.96%) aligned exactly 1 time 1072388 (5.44%) aligned >1 times 91.39% overall alignment rate Time searching: 00:03:43 Overall time: 00:03:43 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] 13753866 / 18024003 = 0.7631 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:59:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.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 14:59:15: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:59:15: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:59:22: 1000000 INFO @ Tue, 10 Dec 2019 14:59:30: 2000000 INFO @ Tue, 10 Dec 2019 14:59:39: 3000000 INFO @ Tue, 10 Dec 2019 14:59:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.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 14:59:45: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:59:45: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:59:46: 4000000 INFO @ Tue, 10 Dec 2019 14:59:48: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 14:59:48: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 14:59:48: #1 total tags in treatment: 4270137 INFO @ Tue, 10 Dec 2019 14:59:48: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:59:48: #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 14:59:48: #1 tags after filtering in treatment: 4270137 INFO @ Tue, 10 Dec 2019 14:59:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:59:48: #1 finished! INFO @ Tue, 10 Dec 2019 14:59:48: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:59:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:59:48: #2 number of paired peaks: 19 WARNING @ Tue, 10 Dec 2019 14:59:48: Too few paired peaks (19) 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 14:59:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.05_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/SRX6932533/SRX6932533.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:59:53: 1000000 INFO @ Tue, 10 Dec 2019 15:00:02: 2000000 INFO @ Tue, 10 Dec 2019 15:00:10: 3000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 15:00:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.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 15:00:15: #1 read tag files... INFO @ Tue, 10 Dec 2019 15:00:15: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 15:00:18: 4000000 INFO @ Tue, 10 Dec 2019 15:00:21: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 15:00:21: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 15:00:21: #1 total tags in treatment: 4270137 INFO @ Tue, 10 Dec 2019 15:00:21: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:00:21: #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 15:00:21: #1 tags after filtering in treatment: 4270137 INFO @ Tue, 10 Dec 2019 15:00:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:00:21: #1 finished! INFO @ Tue, 10 Dec 2019 15:00:21: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:00:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:00:21: #2 number of paired peaks: 19 WARNING @ Tue, 10 Dec 2019 15:00:21: Too few paired peaks (19) 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 15:00:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.10_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/SRX6932533/SRX6932533.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 15:00:22: 1000000 INFO @ Tue, 10 Dec 2019 15:00:29: 2000000 INFO @ Tue, 10 Dec 2019 15:00:37: 3000000 INFO @ Tue, 10 Dec 2019 15:00:44: 4000000 INFO @ Tue, 10 Dec 2019 15:00:46: #1 tag size is determined as 41 bps INFO @ Tue, 10 Dec 2019 15:00:46: #1 tag size = 41 INFO @ Tue, 10 Dec 2019 15:00:46: #1 total tags in treatment: 4270137 INFO @ Tue, 10 Dec 2019 15:00:46: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 15:00:46: #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 15:00:46: #1 tags after filtering in treatment: 4270137 INFO @ Tue, 10 Dec 2019 15:00:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 15:00:46: #1 finished! INFO @ Tue, 10 Dec 2019 15:00:46: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 15:00:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 15:00:46: #2 number of paired peaks: 19 WARNING @ Tue, 10 Dec 2019 15:00:46: Too few paired peaks (19) 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 15:00:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.20_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/SRX6932533/SRX6932533.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932533/SRX6932533.20_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。