Job ID = 2641027 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 22,497,923 reads read : 22,497,923 reads written : 22,497,923 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: 00:03:52 22497923 reads; of these: 22497923 (100.00%) were unpaired; of these: 1707689 (7.59%) aligned 0 times 18940585 (84.19%) aligned exactly 1 time 1849649 (8.22%) aligned >1 times 92.41% overall alignment rate Time searching: 00:03:52 Overall time: 00:03:52 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] 9423374 / 20790234 = 0.4533 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:52:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.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 20:52:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:52:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:52:31: 1000000 INFO @ Sat, 24 Aug 2019 20:52:41: 2000000 INFO @ Sat, 24 Aug 2019 20:52:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.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 20:52:50: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:52:50: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:52:51: 3000000 INFO @ Sat, 24 Aug 2019 20:53:00: 1000000 INFO @ Sat, 24 Aug 2019 20:53:01: 4000000 INFO @ Sat, 24 Aug 2019 20:53:09: 2000000 INFO @ Sat, 24 Aug 2019 20:53:11: 5000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:53:18: 3000000 INFO @ Sat, 24 Aug 2019 20:53:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.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 20:53:20: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:20: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:21: 6000000 INFO @ Sat, 24 Aug 2019 20:53:27: 4000000 INFO @ Sat, 24 Aug 2019 20:53:29: 1000000 INFO @ Sat, 24 Aug 2019 20:53:31: 7000000 INFO @ Sat, 24 Aug 2019 20:53:37: 5000000 INFO @ Sat, 24 Aug 2019 20:53:38: 2000000 INFO @ Sat, 24 Aug 2019 20:53:42: 8000000 INFO @ Sat, 24 Aug 2019 20:53:46: 6000000 INFO @ Sat, 24 Aug 2019 20:53:47: 3000000 INFO @ Sat, 24 Aug 2019 20:53:52: 9000000 INFO @ Sat, 24 Aug 2019 20:53:55: 7000000 INFO @ Sat, 24 Aug 2019 20:53:56: 4000000 INFO @ Sat, 24 Aug 2019 20:54:02: 10000000 INFO @ Sat, 24 Aug 2019 20:54:03: 8000000 INFO @ Sat, 24 Aug 2019 20:54:05: 5000000 INFO @ Sat, 24 Aug 2019 20:54:11: 11000000 INFO @ Sat, 24 Aug 2019 20:54:12: 9000000 INFO @ Sat, 24 Aug 2019 20:54:13: 6000000 INFO @ Sat, 24 Aug 2019 20:54:15: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:15: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:15: #1 total tags in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:15: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:15: #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 20:54:15: #1 tags after filtering in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:15: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:15: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:16: 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 20:54:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.05_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/SRX5257224/SRX5257224.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:54:20: 10000000 INFO @ Sat, 24 Aug 2019 20:54:21: 7000000 INFO @ Sat, 24 Aug 2019 20:54:29: 11000000 INFO @ Sat, 24 Aug 2019 20:54:29: 8000000 INFO @ Sat, 24 Aug 2019 20:54:32: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:32: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:32: #1 total tags in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:32: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:32: #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 20:54:32: #1 tags after filtering in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:32: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:32: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:33: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:33: 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 20:54:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.10_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/SRX5257224/SRX5257224.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:54:37: 9000000 INFO @ Sat, 24 Aug 2019 20:54:45: 10000000 INFO @ Sat, 24 Aug 2019 20:54:53: 11000000 INFO @ Sat, 24 Aug 2019 20:54:56: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:56: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:56: #1 total tags in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:56: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:56: #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 20:54:56: #1 tags after filtering in treatment: 11366860 INFO @ Sat, 24 Aug 2019 20:54:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:56: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:56: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:57: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:57: 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 20:54:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.20_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/SRX5257224/SRX5257224.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257224/SRX5257224.20_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。