Job ID = 2641024 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 24,385,408 reads read : 24,385,408 reads written : 24,385,408 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: 00:04:15 24385408 reads; of these: 24385408 (100.00%) were unpaired; of these: 1223201 (5.02%) aligned 0 times 20546690 (84.26%) aligned exactly 1 time 2615517 (10.73%) aligned >1 times 94.98% overall alignment rate Time searching: 00:04:15 Overall time: 00:04:15 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 12 files... [bam_rmdupse_core] 12430056 / 23162207 = 0.5367 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:52:33: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.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 20:52:33: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:52:33: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:52:40: 1000000 INFO @ Sat, 24 Aug 2019 20:52:47: 2000000 INFO @ Sat, 24 Aug 2019 20:52:54: 3000000 INFO @ Sat, 24 Aug 2019 20:53:01: 4000000 INFO @ Sat, 24 Aug 2019 20:53:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.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 20:53:02: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:02: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:08: 5000000 INFO @ Sat, 24 Aug 2019 20:53:12: 1000000 INFO @ Sat, 24 Aug 2019 20:53:15: 6000000 INFO @ Sat, 24 Aug 2019 20:53:21: 2000000 INFO @ Sat, 24 Aug 2019 20:53:23: 7000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:53:30: 8000000 INFO @ Sat, 24 Aug 2019 20:53:30: 3000000 INFO @ Sat, 24 Aug 2019 20:53:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.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 20:53:32: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:32: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:37: 9000000 INFO @ Sat, 24 Aug 2019 20:53:39: 4000000 INFO @ Sat, 24 Aug 2019 20:53:40: 1000000 INFO @ Sat, 24 Aug 2019 20:53:44: 10000000 INFO @ Sat, 24 Aug 2019 20:53:48: 2000000 INFO @ Sat, 24 Aug 2019 20:53:49: 5000000 INFO @ Sat, 24 Aug 2019 20:53:49: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:53:49: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:53:49: #1 total tags in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:53:49: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:53:49: #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 20:53:50: #1 tags after filtering in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:53:50: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:53:50: #1 finished! INFO @ Sat, 24 Aug 2019 20:53:50: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:53:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:53:50: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:53:50: 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 20:53:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.05_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/SRX5257221/SRX5257221.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:53:56: 3000000 INFO @ Sat, 24 Aug 2019 20:53:58: 6000000 INFO @ Sat, 24 Aug 2019 20:54:04: 4000000 INFO @ Sat, 24 Aug 2019 20:54:07: 7000000 INFO @ Sat, 24 Aug 2019 20:54:12: 5000000 INFO @ Sat, 24 Aug 2019 20:54:17: 8000000 INFO @ Sat, 24 Aug 2019 20:54:20: 6000000 INFO @ Sat, 24 Aug 2019 20:54:26: 9000000 INFO @ Sat, 24 Aug 2019 20:54:27: 7000000 INFO @ Sat, 24 Aug 2019 20:54:35: 8000000 INFO @ Sat, 24 Aug 2019 20:54:36: 10000000 INFO @ Sat, 24 Aug 2019 20:54:42: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:42: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:42: #1 total tags in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:54:42: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:42: #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 20:54:42: #1 tags after filtering in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:54:42: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:42: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:42: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:42: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:43: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:43: 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, 24 Aug 2019 20:54:43: Process for pairing-model is terminated! INFO @ Sat, 24 Aug 2019 20:54:43: 9000000 cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.10_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/SRX5257221/SRX5257221.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:54:51: 10000000 INFO @ Sat, 24 Aug 2019 20:54:57: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:57: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:57: #1 total tags in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:54:57: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:57: #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 20:54:57: #1 tags after filtering in treatment: 10732151 INFO @ Sat, 24 Aug 2019 20:54:57: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:57: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:57: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:58: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:58: 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 20:54:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.20_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/SRX5257221/SRX5257221.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257221/SRX5257221.20_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。