Job ID = 2640892 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 19,965,697 reads read : 39,931,394 reads written : 19,965,697 reads 0-length : 19,965,697 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 19965697 reads; of these: 19965697 (100.00%) were unpaired; of these: 2337155 (11.71%) aligned 0 times 15627120 (78.27%) aligned exactly 1 time 2001422 (10.02%) aligned >1 times 88.29% 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] 7248823 / 17628542 = 0.4112 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 19:55:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.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 19:55:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:55:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:55:15: 1000000 INFO @ Sat, 24 Aug 2019 19:55:22: 2000000 INFO @ Sat, 24 Aug 2019 19:55:28: 3000000 INFO @ Sat, 24 Aug 2019 19:55:35: 4000000 INFO @ Sat, 24 Aug 2019 19:55:38: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.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 19:55:38: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:55:38: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:55:42: 5000000 INFO @ Sat, 24 Aug 2019 19:55:46: 1000000 INFO @ Sat, 24 Aug 2019 19:55:48: 6000000 INFO @ Sat, 24 Aug 2019 19:55:53: 2000000 INFO @ Sat, 24 Aug 2019 19:55:55: 7000000 INFO @ Sat, 24 Aug 2019 19:56:01: 3000000 INFO @ Sat, 24 Aug 2019 19:56:02: 8000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 19:56:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.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 19:56:08: #1 read tag files... INFO @ Sat, 24 Aug 2019 19:56:08: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 19:56:08: 9000000 INFO @ Sat, 24 Aug 2019 19:56:08: 4000000 INFO @ Sat, 24 Aug 2019 19:56:15: 10000000 INFO @ Sat, 24 Aug 2019 19:56:16: 5000000 INFO @ Sat, 24 Aug 2019 19:56:18: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:56:18: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:56:18: #1 total tags in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:56:18: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:56:18: #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 19:56:18: #1 tags after filtering in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:56:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:56:18: #1 finished! INFO @ Sat, 24 Aug 2019 19:56:18: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:56:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:56:18: 1000000 INFO @ Sat, 24 Aug 2019 19:56:19: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:56:19: 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 19:56:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.05_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/SRX3944379/SRX3944379.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:56:23: 6000000 INFO @ Sat, 24 Aug 2019 19:56:27: 2000000 INFO @ Sat, 24 Aug 2019 19:56:31: 7000000 INFO @ Sat, 24 Aug 2019 19:56:36: 3000000 INFO @ Sat, 24 Aug 2019 19:56:38: 8000000 INFO @ Sat, 24 Aug 2019 19:56:45: 4000000 INFO @ Sat, 24 Aug 2019 19:56:46: 9000000 INFO @ Sat, 24 Aug 2019 19:56:53: 10000000 INFO @ Sat, 24 Aug 2019 19:56:54: 5000000 INFO @ Sat, 24 Aug 2019 19:56:56: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:56:56: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:56:56: #1 total tags in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:56:56: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:56:56: #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 19:56:56: #1 tags after filtering in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:56:56: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:56:56: #1 finished! INFO @ Sat, 24 Aug 2019 19:56:56: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:56:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:56:57: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:56:57: 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 19:56:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.10_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/SRX3944379/SRX3944379.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 19:57:03: 6000000 INFO @ Sat, 24 Aug 2019 19:57:12: 7000000 INFO @ Sat, 24 Aug 2019 19:57:20: 8000000 INFO @ Sat, 24 Aug 2019 19:57:28: 9000000 INFO @ Sat, 24 Aug 2019 19:57:37: 10000000 INFO @ Sat, 24 Aug 2019 19:57:40: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 19:57:40: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 19:57:40: #1 total tags in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:57:40: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 19:57:40: #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 19:57:40: #1 tags after filtering in treatment: 10379719 INFO @ Sat, 24 Aug 2019 19:57:40: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 19:57:40: #1 finished! INFO @ Sat, 24 Aug 2019 19:57:40: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 19:57:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 19:57:41: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 19:57:41: 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 19:57:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.20_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/SRX3944379/SRX3944379.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3944379/SRX3944379.20_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。