Job ID = 2641099 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 67,661,811 reads read : 67,661,811 reads written : 67,661,811 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: 00:11:29 67661811 reads; of these: 67661811 (100.00%) were unpaired; of these: 1562500 (2.31%) aligned 0 times 54913534 (81.16%) aligned exactly 1 time 11185777 (16.53%) aligned >1 times 97.69% overall alignment rate Time searching: 00:11:29 Overall time: 00:11:29 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 28 files... [bam_rmdupse_core] 45254891 / 66099311 = 0.6846 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 22:07:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.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 22:07:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:07:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:07:15: 1000000 INFO @ Sat, 24 Aug 2019 22:07:22: 2000000 INFO @ Sat, 24 Aug 2019 22:07:29: 3000000 INFO @ Sat, 24 Aug 2019 22:07:36: 4000000 INFO @ Sat, 24 Aug 2019 22:07:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.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 22:07:38: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:07:38: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:07:43: 5000000 INFO @ Sat, 24 Aug 2019 22:07:45: 1000000 INFO @ Sat, 24 Aug 2019 22:07:50: 6000000 INFO @ Sat, 24 Aug 2019 22:07:52: 2000000 INFO @ Sat, 24 Aug 2019 22:07:57: 7000000 INFO @ Sat, 24 Aug 2019 22:07:59: 3000000 INFO @ Sat, 24 Aug 2019 22:08:04: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 22:08:06: 4000000 INFO @ Sat, 24 Aug 2019 22:08:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.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 22:08:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 22:08:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 22:08:11: 9000000 INFO @ Sat, 24 Aug 2019 22:08:13: 5000000 INFO @ Sat, 24 Aug 2019 22:08:17: 1000000 INFO @ Sat, 24 Aug 2019 22:08:18: 10000000 INFO @ Sat, 24 Aug 2019 22:08:20: 6000000 INFO @ Sat, 24 Aug 2019 22:08:25: 2000000 INFO @ Sat, 24 Aug 2019 22:08:25: 11000000 INFO @ Sat, 24 Aug 2019 22:08:27: 7000000 INFO @ Sat, 24 Aug 2019 22:08:32: 12000000 INFO @ Sat, 24 Aug 2019 22:08:33: 3000000 INFO @ Sat, 24 Aug 2019 22:08:34: 8000000 INFO @ Sat, 24 Aug 2019 22:08:39: 13000000 INFO @ Sat, 24 Aug 2019 22:08:41: 9000000 INFO @ Sat, 24 Aug 2019 22:08:42: 4000000 INFO @ Sat, 24 Aug 2019 22:08:46: 14000000 INFO @ Sat, 24 Aug 2019 22:08:48: 10000000 INFO @ Sat, 24 Aug 2019 22:08:50: 5000000 INFO @ Sat, 24 Aug 2019 22:08:53: 15000000 INFO @ Sat, 24 Aug 2019 22:08:55: 11000000 INFO @ Sat, 24 Aug 2019 22:08:58: 6000000 INFO @ Sat, 24 Aug 2019 22:09:00: 16000000 INFO @ Sat, 24 Aug 2019 22:09:02: 12000000 INFO @ Sat, 24 Aug 2019 22:09:06: 7000000 INFO @ Sat, 24 Aug 2019 22:09:07: 17000000 INFO @ Sat, 24 Aug 2019 22:09:09: 13000000 INFO @ Sat, 24 Aug 2019 22:09:14: 18000000 INFO @ Sat, 24 Aug 2019 22:09:14: 8000000 INFO @ Sat, 24 Aug 2019 22:09:16: 14000000 INFO @ Sat, 24 Aug 2019 22:09:21: 19000000 INFO @ Sat, 24 Aug 2019 22:09:22: 9000000 INFO @ Sat, 24 Aug 2019 22:09:23: 15000000 INFO @ Sat, 24 Aug 2019 22:09:28: 20000000 INFO @ Sat, 24 Aug 2019 22:09:30: 16000000 INFO @ Sat, 24 Aug 2019 22:09:31: 10000000 INFO @ Sat, 24 Aug 2019 22:09:34: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:09:34: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:09:34: #1 total tags in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:09:34: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:09:34: #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 22:09:34: #1 tags after filtering in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:09:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:09:34: #1 finished! INFO @ Sat, 24 Aug 2019 22:09:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:09:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:09:36: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:09:36: 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 22:09:36: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.05_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/SRX5431200/SRX5431200.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:09:37: 17000000 INFO @ Sat, 24 Aug 2019 22:09:39: 11000000 INFO @ Sat, 24 Aug 2019 22:09:44: 18000000 INFO @ Sat, 24 Aug 2019 22:09:47: 12000000 INFO @ Sat, 24 Aug 2019 22:09:51: 19000000 INFO @ Sat, 24 Aug 2019 22:09:55: 13000000 INFO @ Sat, 24 Aug 2019 22:09:58: 20000000 INFO @ Sat, 24 Aug 2019 22:10:03: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 22:10:04: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:10:04: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:10:04: #1 total tags in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:10:04: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:10:04: #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 22:10:04: #1 tags after filtering in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:10:04: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:10:04: #1 finished! INFO @ Sat, 24 Aug 2019 22:10:04: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:10:04: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:10:06: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:10:06: 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 22:10:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.10_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/SRX5431200/SRX5431200.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 22:10:11: 15000000 BigWig に変換しました。 INFO @ Sat, 24 Aug 2019 22:10:19: 16000000 INFO @ Sat, 24 Aug 2019 22:10:26: 17000000 INFO @ Sat, 24 Aug 2019 22:10:34: 18000000 INFO @ Sat, 24 Aug 2019 22:10:42: 19000000 INFO @ Sat, 24 Aug 2019 22:10:50: 20000000 INFO @ Sat, 24 Aug 2019 22:10:57: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 22:10:57: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 22:10:57: #1 total tags in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:10:57: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 22:10:57: #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 22:10:57: #1 tags after filtering in treatment: 20844420 INFO @ Sat, 24 Aug 2019 22:10:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 22:10:57: #1 finished! INFO @ Sat, 24 Aug 2019 22:10:57: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 22:10:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 22:10:59: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 22:10:59: 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 22:10:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.20_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/SRX5431200/SRX5431200.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5431200/SRX5431200.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling