Job ID = 4289258 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 40,513,280 reads read : 81,026,560 reads written : 40,513,280 reads 0-length : 40,513,280 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:07:14 40513280 reads; of these: 40513280 (100.00%) were unpaired; of these: 817658 (2.02%) aligned 0 times 31939431 (78.84%) aligned exactly 1 time 7756191 (19.14%) aligned >1 times 97.98% overall alignment rate Time searching: 00:07:15 Overall time: 00:07:15 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 20 files... [bam_rmdupse_core] 23734225 / 39695622 = 0.5979 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:20:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.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 14:20:38: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:20:38: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:20:46: 1000000 INFO @ Tue, 10 Dec 2019 14:20:53: 2000000 INFO @ Tue, 10 Dec 2019 14:21:01: 3000000 INFO @ Tue, 10 Dec 2019 14:21:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.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 14:21:08: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:21:08: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:21:09: 4000000 INFO @ Tue, 10 Dec 2019 14:21:17: 5000000 INFO @ Tue, 10 Dec 2019 14:21:19: 1000000 INFO @ Tue, 10 Dec 2019 14:21:24: 6000000 INFO @ Tue, 10 Dec 2019 14:21:29: 2000000 INFO @ Tue, 10 Dec 2019 14:21:33: 7000000 BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:21:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.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 14:21:38: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:21:38: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:21:40: 3000000 INFO @ Tue, 10 Dec 2019 14:21:41: 8000000 INFO @ Tue, 10 Dec 2019 14:21:46: 1000000 INFO @ Tue, 10 Dec 2019 14:21:49: 9000000 INFO @ Tue, 10 Dec 2019 14:21:51: 4000000 INFO @ Tue, 10 Dec 2019 14:21:55: 2000000 INFO @ Tue, 10 Dec 2019 14:21:57: 10000000 INFO @ Tue, 10 Dec 2019 14:22:02: 5000000 INFO @ Tue, 10 Dec 2019 14:22:03: 3000000 INFO @ Tue, 10 Dec 2019 14:22:05: 11000000 INFO @ Tue, 10 Dec 2019 14:22:12: 4000000 INFO @ Tue, 10 Dec 2019 14:22:13: 6000000 INFO @ Tue, 10 Dec 2019 14:22:13: 12000000 INFO @ Tue, 10 Dec 2019 14:22:20: 5000000 INFO @ Tue, 10 Dec 2019 14:22:22: 13000000 INFO @ Tue, 10 Dec 2019 14:22:24: 7000000 INFO @ Tue, 10 Dec 2019 14:22:29: 6000000 INFO @ Tue, 10 Dec 2019 14:22:30: 14000000 INFO @ Tue, 10 Dec 2019 14:22:35: 8000000 INFO @ Tue, 10 Dec 2019 14:22:38: 15000000 INFO @ Tue, 10 Dec 2019 14:22:38: 7000000 INFO @ Tue, 10 Dec 2019 14:22:46: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:22:46: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:22:46: #1 total tags in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:22:46: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:22:46: #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 14:22:46: #1 tags after filtering in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:22:46: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:22:46: #1 finished! INFO @ Tue, 10 Dec 2019 14:22:46: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:22:46: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:22:46: 9000000 INFO @ Tue, 10 Dec 2019 14:22:46: 8000000 INFO @ Tue, 10 Dec 2019 14:22:47: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:22:47: 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 14:22:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.05_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/SRX6635431/SRX6635431.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:22:55: 9000000 INFO @ Tue, 10 Dec 2019 14:22:57: 10000000 INFO @ Tue, 10 Dec 2019 14:23:03: 10000000 INFO @ Tue, 10 Dec 2019 14:23:07: 11000000 INFO @ Tue, 10 Dec 2019 14:23:11: 11000000 INFO @ Tue, 10 Dec 2019 14:23:18: 12000000 INFO @ Tue, 10 Dec 2019 14:23:20: 12000000 INFO @ Tue, 10 Dec 2019 14:23:28: 13000000 INFO @ Tue, 10 Dec 2019 14:23:29: 13000000 INFO @ Tue, 10 Dec 2019 14:23:37: 14000000 INFO @ Tue, 10 Dec 2019 14:23:40: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 10 Dec 2019 14:23:45: 15000000 INFO @ Tue, 10 Dec 2019 14:23:51: 15000000 INFO @ Tue, 10 Dec 2019 14:23:53: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:23:53: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:23:53: #1 total tags in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:23:53: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:23:53: #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 14:23:53: #1 tags after filtering in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:23:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:23:53: #1 finished! INFO @ Tue, 10 Dec 2019 14:23:53: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:23:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:23:54: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:23:54: 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 14:23:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.20_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/SRX6635431/SRX6635431.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Tue, 10 Dec 2019 14:24:00: #1 tag size is determined as 51 bps INFO @ Tue, 10 Dec 2019 14:24:00: #1 tag size = 51 INFO @ Tue, 10 Dec 2019 14:24:00: #1 total tags in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:24:00: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:24:00: #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 14:24:01: #1 tags after filtering in treatment: 15961397 INFO @ Tue, 10 Dec 2019 14:24:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:24:01: #1 finished! INFO @ Tue, 10 Dec 2019 14:24:01: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:24:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:24:02: #2 number of paired peaks: 0 WARNING @ Tue, 10 Dec 2019 14:24:02: 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 14:24:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.10_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/SRX6635431/SRX6635431.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6635431/SRX6635431.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling