Job ID = 2640860 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,066,771 reads read : 44,133,542 reads written : 22,066,771 reads 0-length : 22,066,771 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: 00:03:18 22066771 reads; of these: 22066771 (100.00%) were unpaired; of these: 5350300 (24.25%) aligned 0 times 15030311 (68.11%) aligned exactly 1 time 1686160 (7.64%) aligned >1 times 75.75% overall alignment rate Time searching: 00:03:18 Overall time: 00:03:18 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] 7555296 / 16716471 = 0.4520 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:44:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.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 19:44:38: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:44:38: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:44:44: 1000000 INFO @ Sat, 24 Aug 2019 19:44:50: 2000000 INFO @ Sat, 24 Aug 2019 19:44:56: 3000000 INFO @ Sat, 24 Aug 2019 19:45:02: 4000000 INFO @ Sat, 24 Aug 2019 19:45:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.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 19:45:07: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:45:07: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:45:09: 5000000 INFO @ Sat, 24 Aug 2019 19:45:15: 6000000 INFO @ Sat, 24 Aug 2019 19:45:15: 1000000 INFO @ Sat, 24 Aug 2019 19:45:21: 7000000 INFO @ Sat, 24 Aug 2019 19:45:23: 2000000 INFO @ Sat, 24 Aug 2019 19:45:27: 8000000 INFO @ Sat, 24 Aug 2019 19:45:30: 3000000 INFO @ Sat, 24 Aug 2019 19:45:33: 9000000 INFO @ Sat, 24 Aug 2019 19:45:34: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:45:34: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:45:34: #1 total tags in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:45:34: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:45:34: #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 19:45:34: #1 tags after filtering in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:45:34: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:45:34: #1 finished! INFO @ Sat, 24 Aug 2019 19:45:34: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:45:34: #2 looking for paired plus/minus strand peaks... BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:45:35: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:45:35: 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 19:45:35: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.05_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/SRX3944356/SRX3944356.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:45:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.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 19:45:37: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:45:37: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:45:37: 4000000 INFO @ Sat, 24 Aug 2019 19:45:45: 1000000 INFO @ Sat, 24 Aug 2019 19:45:45: 5000000 INFO @ Sat, 24 Aug 2019 19:45:52: 2000000 INFO @ Sat, 24 Aug 2019 19:45:53: 6000000 INFO @ Sat, 24 Aug 2019 19:46:00: 3000000 INFO @ Sat, 24 Aug 2019 19:46:01: 7000000 INFO @ Sat, 24 Aug 2019 19:46:07: 4000000 INFO @ Sat, 24 Aug 2019 19:46:09: 8000000 INFO @ Sat, 24 Aug 2019 19:46:15: 5000000 INFO @ Sat, 24 Aug 2019 19:46:16: 9000000 INFO @ Sat, 24 Aug 2019 19:46:17: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:46:17: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:46:17: #1 total tags in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:46:17: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:46:17: #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 19:46:18: #1 tags after filtering in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:46:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:46:18: #1 finished! INFO @ Sat, 24 Aug 2019 19:46:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:46:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:46:18: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:46:18: 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 19:46:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.10_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/SRX3944356/SRX3944356.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:46:22: 6000000 INFO @ Sat, 24 Aug 2019 19:46:30: 7000000 INFO @ Sat, 24 Aug 2019 19:46:38: 8000000 INFO @ Sat, 24 Aug 2019 19:46:45: 9000000 INFO @ Sat, 24 Aug 2019 19:46:46: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:46:46: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:46:46: #1 total tags in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:46:46: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:46:46: #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 19:46:47: #1 tags after filtering in treatment: 9161175 INFO @ Sat, 24 Aug 2019 19:46:47: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:46:47: #1 finished! INFO @ Sat, 24 Aug 2019 19:46:47: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:46:47: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:46:47: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:46:47: 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, 24 Aug 2019 19:46:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.20_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/SRX3944356/SRX3944356.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944356/SRX3944356.20_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。