Job ID = 2640823 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 11,769,323 reads read : 11,769,323 reads written : 11,769,323 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: 00:02:07 11769323 reads; of these: 11769323 (100.00%) were unpaired; of these: 533318 (4.53%) aligned 0 times 10480276 (89.05%) aligned exactly 1 time 755729 (6.42%) aligned >1 times 95.47% overall alignment rate Time searching: 00:02:07 Overall time: 00:02:07 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] 3124416 / 11236005 = 0.2781 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:33:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.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 19:33:13: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:33:13: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:20: 1000000 INFO @ Sat, 24 Aug 2019 19:33:27: 2000000 INFO @ Sat, 24 Aug 2019 19:33:34: 3000000 INFO @ Sat, 24 Aug 2019 19:33:41: 4000000 INFO @ Sat, 24 Aug 2019 19:33:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.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 19:33:43: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:33:43: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:33:48: 5000000 INFO @ Sat, 24 Aug 2019 19:33:50: 1000000 INFO @ Sat, 24 Aug 2019 19:33:55: 6000000 INFO @ Sat, 24 Aug 2019 19:33:57: 2000000 INFO @ Sat, 24 Aug 2019 19:34:02: 7000000 INFO @ Sat, 24 Aug 2019 19:34:04: 3000000 INFO @ Sat, 24 Aug 2019 19:34:09: 8000000 INFO @ Sat, 24 Aug 2019 19:34:10: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:34:10: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:34:10: #1 total tags in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:34:10: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:34:10: #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 19:34:10: #1 tags after filtering in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:34:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:34:10: #1 finished! INFO @ Sat, 24 Aug 2019 19:34:10: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:34:10: #2 looking for paired plus/minus strand peaks... BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:34:11: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:34:11: 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 19:34:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.05_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/SRX3421876/SRX3421876.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:34:11: 4000000 INFO @ Sat, 24 Aug 2019 19:34:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.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 19:34:13: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:34:13: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:34:18: 5000000 INFO @ Sat, 24 Aug 2019 19:34:21: 1000000 INFO @ Sat, 24 Aug 2019 19:34:25: 6000000 INFO @ Sat, 24 Aug 2019 19:34:29: 2000000 INFO @ Sat, 24 Aug 2019 19:34:32: 7000000 INFO @ Sat, 24 Aug 2019 19:34:37: 3000000 INFO @ Sat, 24 Aug 2019 19:34:39: 8000000 INFO @ Sat, 24 Aug 2019 19:34:40: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:34:40: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:34:40: #1 total tags in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:34:40: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:34:40: #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 19:34:40: #1 tags after filtering in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:34:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:34:40: #1 finished! INFO @ Sat, 24 Aug 2019 19:34:40: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:34:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:34:41: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:34:41: 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 19:34:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.10_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/SRX3421876/SRX3421876.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:34:44: 4000000 INFO @ Sat, 24 Aug 2019 19:34:52: 5000000 INFO @ Sat, 24 Aug 2019 19:35:00: 6000000 INFO @ Sat, 24 Aug 2019 19:35:07: 7000000 INFO @ Sat, 24 Aug 2019 19:35:15: 8000000 INFO @ Sat, 24 Aug 2019 19:35:16: #1 tag size is determined as 51 bps INFO @ Sat, 24 Aug 2019 19:35:16: #1 tag size = 51 INFO @ Sat, 24 Aug 2019 19:35:16: #1 total tags in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:35:16: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:35:16: #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 19:35:16: #1 tags after filtering in treatment: 8111589 INFO @ Sat, 24 Aug 2019 19:35:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:35:16: #1 finished! INFO @ Sat, 24 Aug 2019 19:35:16: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:35:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:35:17: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:35:17: 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 19:35:17: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.20_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/SRX3421876/SRX3421876.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3421876/SRX3421876.20_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。