Job ID = 2641061 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 59,897,027 reads read : 119,794,054 reads written : 59,897,027 reads 0-length : 59,897,027 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: 00:10:23 59897027 reads; of these: 59897027 (100.00%) were unpaired; of these: 1601404 (2.67%) aligned 0 times 52833407 (88.21%) aligned exactly 1 time 5462216 (9.12%) aligned >1 times 97.33% overall alignment rate Time searching: 00:10:23 Overall time: 00:10:23 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 24 files... [bam_rmdupse_core] 43873746 / 58295623 = 0.7526 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 21:36:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.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 21:36:23: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:36:23: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:36:30: 1000000 INFO @ Sat, 24 Aug 2019 21:36:38: 2000000 INFO @ Sat, 24 Aug 2019 21:36:45: 3000000 INFO @ Sat, 24 Aug 2019 21:36:52: 4000000 INFO @ Sat, 24 Aug 2019 21:36:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.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 21:36:52: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:36:52: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:37:00: 5000000 INFO @ Sat, 24 Aug 2019 21:37:01: 1000000 INFO @ Sat, 24 Aug 2019 21:37:08: 6000000 INFO @ Sat, 24 Aug 2019 21:37:09: 2000000 INFO @ Sat, 24 Aug 2019 21:37:15: 7000000 INFO @ Sat, 24 Aug 2019 21:37:17: 3000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 21:37:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.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 21:37:22: #1 read tag files... INFO @ Sat, 24 Aug 2019 21:37:22: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 21:37:24: 8000000 INFO @ Sat, 24 Aug 2019 21:37:25: 4000000 INFO @ Sat, 24 Aug 2019 21:37:30: 1000000 INFO @ Sat, 24 Aug 2019 21:37:31: 9000000 INFO @ Sat, 24 Aug 2019 21:37:33: 5000000 INFO @ Sat, 24 Aug 2019 21:37:38: 2000000 INFO @ Sat, 24 Aug 2019 21:37:38: 10000000 INFO @ Sat, 24 Aug 2019 21:37:41: 6000000 INFO @ Sat, 24 Aug 2019 21:37:46: 3000000 INFO @ Sat, 24 Aug 2019 21:37:46: 11000000 INFO @ Sat, 24 Aug 2019 21:37:48: 7000000 INFO @ Sat, 24 Aug 2019 21:37:53: 12000000 INFO @ Sat, 24 Aug 2019 21:37:53: 4000000 INFO @ Sat, 24 Aug 2019 21:37:56: 8000000 INFO @ Sat, 24 Aug 2019 21:38:00: 13000000 INFO @ Sat, 24 Aug 2019 21:38:01: 5000000 INFO @ Sat, 24 Aug 2019 21:38:03: 9000000 INFO @ Sat, 24 Aug 2019 21:38:07: 14000000 INFO @ Sat, 24 Aug 2019 21:38:08: 6000000 INFO @ Sat, 24 Aug 2019 21:38:11: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:38:11: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:38:11: #1 total tags in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:38:11: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:38:11: #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 21:38:11: #1 tags after filtering in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:38:11: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:38:11: #1 finished! INFO @ Sat, 24 Aug 2019 21:38:11: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:38:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:38:11: 10000000 INFO @ Sat, 24 Aug 2019 21:38:12: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:38:12: 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 21:38:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.05_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/SRX5257255/SRX5257255.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:38:16: 7000000 INFO @ Sat, 24 Aug 2019 21:38:19: 11000000 INFO @ Sat, 24 Aug 2019 21:38:23: 8000000 INFO @ Sat, 24 Aug 2019 21:38:26: 12000000 INFO @ Sat, 24 Aug 2019 21:38:30: 9000000 INFO @ Sat, 24 Aug 2019 21:38:33: 13000000 INFO @ Sat, 24 Aug 2019 21:38:38: 10000000 INFO @ Sat, 24 Aug 2019 21:38:40: 14000000 INFO @ Sat, 24 Aug 2019 21:38:43: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:38:43: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:38:43: #1 total tags in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:38:43: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:38:43: #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 21:38:44: #1 tags after filtering in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:38:44: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:38:44: #1 finished! INFO @ Sat, 24 Aug 2019 21:38:44: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:38:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:38:45: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:38:45: 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 21:38:45: Process for pairing-model is terminated! INFO @ Sat, 24 Aug 2019 21:38:45: 11000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.10_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/SRX5257255/SRX5257255.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 21:38:52: 12000000 INFO @ Sat, 24 Aug 2019 21:38:59: 13000000 INFO @ Sat, 24 Aug 2019 21:39:06: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 24 Aug 2019 21:39:09: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 21:39:09: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 21:39:09: #1 total tags in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:39:09: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 21:39:09: #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 21:39:09: #1 tags after filtering in treatment: 14421877 INFO @ Sat, 24 Aug 2019 21:39:09: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 21:39:09: #1 finished! INFO @ Sat, 24 Aug 2019 21:39:09: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 21:39:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 21:39:10: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 21:39:10: 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 21:39:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.20_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/SRX5257255/SRX5257255.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257255/SRX5257255.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。