Job ID = 2640873 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,736,263 reads read : 41,472,526 reads written : 20,736,263 reads 0-length : 20,736,263 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: 00:03:46 20736263 reads; of these: 20736263 (100.00%) were unpaired; of these: 3272933 (15.78%) aligned 0 times 15588464 (75.17%) aligned exactly 1 time 1874866 (9.04%) aligned >1 times 84.22% overall alignment rate Time searching: 00:03:46 Overall time: 00:03:46 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] 7218907 / 17463330 = 0.4134 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:48:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.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, 24 Aug 2019 19:48:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:16: 1000000 INFO @ Sat, 24 Aug 2019 19:48:24: 2000000 INFO @ Sat, 24 Aug 2019 19:48:32: 3000000 INFO @ Sat, 24 Aug 2019 19:48:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.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, 24 Aug 2019 19:48:38: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:48:38: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:48:40: 4000000 INFO @ Sat, 24 Aug 2019 19:48:46: 1000000 INFO @ Sat, 24 Aug 2019 19:48:48: 5000000 INFO @ Sat, 24 Aug 2019 19:48:55: 2000000 INFO @ Sat, 24 Aug 2019 19:48:56: 6000000 INFO @ Sat, 24 Aug 2019 19:49:03: 3000000 INFO @ Sat, 24 Aug 2019 19:49:04: 7000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:49:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.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, 24 Aug 2019 19:49:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:49:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:49:12: 4000000 INFO @ Sat, 24 Aug 2019 19:49:12: 8000000 INFO @ Sat, 24 Aug 2019 19:49:15: 1000000 INFO @ Sat, 24 Aug 2019 19:49:20: 5000000 INFO @ Sat, 24 Aug 2019 19:49:21: 9000000 INFO @ Sat, 24 Aug 2019 19:49:23: 2000000 INFO @ Sat, 24 Aug 2019 19:49:28: 6000000 INFO @ Sat, 24 Aug 2019 19:49:29: 10000000 INFO @ Sat, 24 Aug 2019 19:49:31: 3000000 INFO @ Sat, 24 Aug 2019 19:49:31: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:49:31: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:49:31: #1 total tags in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:49:31: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:49:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:49:31: #1 tags after filtering in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:49:31: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:49:31: #1 finished! INFO @ Sat, 24 Aug 2019 19:49:31: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:49:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:49:32: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:49:32: Too few paired peaks (0) 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, 24 Aug 2019 19:49:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.05_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/SRX3944365/SRX3944365.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:49:36: 7000000 INFO @ Sat, 24 Aug 2019 19:49:38: 4000000 INFO @ Sat, 24 Aug 2019 19:49:44: 8000000 INFO @ Sat, 24 Aug 2019 19:49:45: 5000000 INFO @ Sat, 24 Aug 2019 19:49:52: 9000000 INFO @ Sat, 24 Aug 2019 19:49:53: 6000000 INFO @ Sat, 24 Aug 2019 19:50:00: 7000000 INFO @ Sat, 24 Aug 2019 19:50:01: 10000000 INFO @ Sat, 24 Aug 2019 19:50:02: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:02: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:02: #1 total tags in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:50:02: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:50:03: #1 tags after filtering in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:50:03: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:03: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:03: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:03: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:03: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:03: Too few paired peaks (0) 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, 24 Aug 2019 19:50:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.10_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/SRX3944365/SRX3944365.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:50:07: 8000000 INFO @ Sat, 24 Aug 2019 19:50:15: 9000000 INFO @ Sat, 24 Aug 2019 19:50:22: 10000000 INFO @ Sat, 24 Aug 2019 19:50:23: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:50:23: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:50:23: #1 total tags in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:50:23: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:50:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 24 Aug 2019 19:50:24: #1 tags after filtering in treatment: 10244423 INFO @ Sat, 24 Aug 2019 19:50:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:50:24: #1 finished! INFO @ Sat, 24 Aug 2019 19:50:24: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:50:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:50:24: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:50:24: Too few paired peaks (0) 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, 24 Aug 2019 19:50:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.20_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/SRX3944365/SRX3944365.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944365/SRX3944365.20_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。