Job ID = 2011008 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 32,892,250 reads read : 65,784,500 reads written : 32,892,250 reads 0-length : 32,892,250 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: 00:06:22 32892250 reads; of these: 32892250 (100.00%) were unpaired; of these: 1293602 (3.93%) aligned 0 times 27473148 (83.52%) aligned exactly 1 time 4125500 (12.54%) aligned >1 times 96.07% overall alignment rate Time searching: 00:06:22 Overall time: 00:06:22 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 16 files... [bam_rmdupse_core] 18223529 / 31598648 = 0.5767 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 02:01:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.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, 06 Jul 2019 02:01:08: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:01:08: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:01:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.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, 06 Jul 2019 02:01:09: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:01:09: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:01:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.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, 06 Jul 2019 02:01:17: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:01:17: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:01:20: 1000000 INFO @ Sat, 06 Jul 2019 02:01:21: 1000000 INFO @ Sat, 06 Jul 2019 02:01:27: 1000000 INFO @ Sat, 06 Jul 2019 02:01:32: 2000000 INFO @ Sat, 06 Jul 2019 02:01:33: 2000000 INFO @ Sat, 06 Jul 2019 02:01:37: 2000000 INFO @ Sat, 06 Jul 2019 02:01:44: 3000000 INFO @ Sat, 06 Jul 2019 02:01:45: 3000000 INFO @ Sat, 06 Jul 2019 02:01:46: 3000000 INFO @ Sat, 06 Jul 2019 02:01:56: 4000000 INFO @ Sat, 06 Jul 2019 02:01:57: 4000000 INFO @ Sat, 06 Jul 2019 02:01:57: 4000000 INFO @ Sat, 06 Jul 2019 02:02:05: 5000000 INFO @ Sat, 06 Jul 2019 02:02:08: 5000000 INFO @ Sat, 06 Jul 2019 02:02:09: 5000000 INFO @ Sat, 06 Jul 2019 02:02:14: 6000000 INFO @ Sat, 06 Jul 2019 02:02:19: 6000000 INFO @ Sat, 06 Jul 2019 02:02:20: 6000000 INFO @ Sat, 06 Jul 2019 02:02:23: 7000000 INFO @ Sat, 06 Jul 2019 02:02:31: 7000000 INFO @ Sat, 06 Jul 2019 02:02:32: 7000000 INFO @ Sat, 06 Jul 2019 02:02:33: 8000000 INFO @ Sat, 06 Jul 2019 02:02:43: 8000000 INFO @ Sat, 06 Jul 2019 02:02:43: 9000000 INFO @ Sat, 06 Jul 2019 02:02:44: 8000000 INFO @ Sat, 06 Jul 2019 02:02:52: 10000000 INFO @ Sat, 06 Jul 2019 02:02:55: 9000000 INFO @ Sat, 06 Jul 2019 02:02:56: 9000000 INFO @ Sat, 06 Jul 2019 02:03:01: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 02:03:07: 10000000 INFO @ Sat, 06 Jul 2019 02:03:07: 10000000 INFO @ Sat, 06 Jul 2019 02:03:10: 12000000 INFO @ Sat, 06 Jul 2019 02:03:17: 11000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 02:03:19: 11000000 INFO @ Sat, 06 Jul 2019 02:03:19: 13000000 INFO @ Sat, 06 Jul 2019 02:03:22: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:03:22: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:03:22: #1 total tags in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:22: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:03:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:03:23: #1 tags after filtering in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:03:23: #1 finished! INFO @ Sat, 06 Jul 2019 02:03:23: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:03:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:03:24: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:03:24: 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, 06 Jul 2019 02:03:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.20_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/SRX4409376/SRX4409376.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:03:28: 12000000 INFO @ Sat, 06 Jul 2019 02:03:30: 12000000 INFO @ Sat, 06 Jul 2019 02:03:38: 13000000 INFO @ Sat, 06 Jul 2019 02:03:42: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:03:42: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:03:42: #1 total tags in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:42: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:03:42: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:03:42: 13000000 INFO @ Sat, 06 Jul 2019 02:03:42: #1 tags after filtering in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:03:42: #1 finished! INFO @ Sat, 06 Jul 2019 02:03:42: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:03:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:03:43: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:03:43: 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, 06 Jul 2019 02:03:43: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.05_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/SRX4409376/SRX4409376.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:03:45: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:03:45: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:03:45: #1 total tags in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:45: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:03:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:03:46: #1 tags after filtering in treatment: 13375119 INFO @ Sat, 06 Jul 2019 02:03:46: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:03:46: #1 finished! INFO @ Sat, 06 Jul 2019 02:03:46: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:03:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:03:47: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 02:03:47: 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 @ Sat, 06 Jul 2019 02:03:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.10_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/SRX4409376/SRX4409376.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4409376/SRX4409376.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling