Job ID = 4289437 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 17,962,272 reads read : 17,962,272 reads written : 17,962,272 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: 00:03:12 17962272 reads; of these: 17962272 (100.00%) were unpaired; of these: 2225871 (12.39%) aligned 0 times 14404005 (80.19%) aligned exactly 1 time 1332396 (7.42%) aligned >1 times 87.61% overall alignment rate Time searching: 00:03:12 Overall time: 00:03:12 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] 7238168 / 15736401 = 0.4600 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:41:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.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 14:41:56: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:41:56: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:42:07: 1000000 INFO @ Tue, 10 Dec 2019 14:42:20: 2000000 INFO @ Tue, 10 Dec 2019 14:42:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.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 14:42:26: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:42:26: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:42:31: 3000000 INFO @ Tue, 10 Dec 2019 14:42:36: 1000000 INFO @ Tue, 10 Dec 2019 14:42:44: 4000000 INFO @ Tue, 10 Dec 2019 14:42:45: 2000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:42:55: 3000000 INFO @ Tue, 10 Dec 2019 14:42:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.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 14:42:56: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:42:56: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:42:58: 5000000 INFO @ Tue, 10 Dec 2019 14:43:05: 4000000 INFO @ Tue, 10 Dec 2019 14:43:07: 1000000 INFO @ Tue, 10 Dec 2019 14:43:13: 6000000 INFO @ Tue, 10 Dec 2019 14:43:15: 5000000 INFO @ Tue, 10 Dec 2019 14:43:18: 2000000 INFO @ Tue, 10 Dec 2019 14:43:26: 6000000 INFO @ Tue, 10 Dec 2019 14:43:27: 7000000 INFO @ Tue, 10 Dec 2019 14:43:28: 3000000 INFO @ Tue, 10 Dec 2019 14:43:37: 7000000 INFO @ Tue, 10 Dec 2019 14:43:37: 4000000 INFO @ Tue, 10 Dec 2019 14:43:41: 8000000 INFO @ Tue, 10 Dec 2019 14:43:47: 5000000 INFO @ Tue, 10 Dec 2019 14:43:48: 8000000 INFO @ Tue, 10 Dec 2019 14:43:48: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:43:48: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:43:48: #1 total tags in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:43:48: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:43:48: #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 14:43:48: #1 tags after filtering in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:43:48: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:43:48: #1 finished! INFO @ Tue, 10 Dec 2019 14:43:48: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:43:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:43:49: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:43:49: 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 @ Tue, 10 Dec 2019 14:43:49: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.05_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/SRX6678263/SRX6678263.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:43:52: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:43:52: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:43:52: #1 total tags in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:43:52: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:43:52: #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 14:43:52: #1 tags after filtering in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:43:52: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:43:52: #1 finished! INFO @ Tue, 10 Dec 2019 14:43:52: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:43:52: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:43:53: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:43:53: 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 @ Tue, 10 Dec 2019 14:43:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.10_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/SRX6678263/SRX6678263.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:43:57: 6000000 INFO @ Tue, 10 Dec 2019 14:44:06: 7000000 INFO @ Tue, 10 Dec 2019 14:44:15: 8000000 INFO @ Tue, 10 Dec 2019 14:44:19: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:44:19: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:44:19: #1 total tags in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:44:19: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:44:19: #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 14:44:19: #1 tags after filtering in treatment: 8498233 INFO @ Tue, 10 Dec 2019 14:44:19: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:44:19: #1 finished! INFO @ Tue, 10 Dec 2019 14:44:19: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:44:19: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:44:20: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:44:20: 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 @ Tue, 10 Dec 2019 14:44:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.20_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/SRX6678263/SRX6678263.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6678263/SRX6678263.20_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。