Job ID = 2641033 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 23,877,273 reads read : 47,754,546 reads written : 23,877,273 reads 0-length : 23,877,273 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: 00:04:16 23877273 reads; of these: 23877273 (100.00%) were unpaired; of these: 1330975 (5.57%) aligned 0 times 20515005 (85.92%) aligned exactly 1 time 2031293 (8.51%) aligned >1 times 94.43% overall alignment rate Time searching: 00:04:16 Overall time: 00:04:16 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] 12008190 / 22546298 = 0.5326 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Sat, 24 Aug 2019 20:53:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.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 20:53:12: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:12: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:18: 1000000 INFO @ Sat, 24 Aug 2019 20:53:24: 2000000 INFO @ Sat, 24 Aug 2019 20:53:30: 3000000 INFO @ Sat, 24 Aug 2019 20:53:36: 4000000 INFO @ Sat, 24 Aug 2019 20:53:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.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 20:53:41: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:53:41: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:53:41: 5000000 INFO @ Sat, 24 Aug 2019 20:53:47: 6000000 INFO @ Sat, 24 Aug 2019 20:53:48: 1000000 INFO @ Sat, 24 Aug 2019 20:53:53: 7000000 INFO @ Sat, 24 Aug 2019 20:53:54: 2000000 INFO @ Sat, 24 Aug 2019 20:53:59: 8000000 INFO @ Sat, 24 Aug 2019 20:54:01: 3000000 INFO @ Sat, 24 Aug 2019 20:54:05: 9000000 INFO @ Sat, 24 Aug 2019 20:54:07: 4000000 BedGraph に変換中... INFO @ Sat, 24 Aug 2019 20:54:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.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 20:54:11: #1 read tag files... INFO @ Sat, 24 Aug 2019 20:54:11: #1 read treatment tags... INFO @ Sat, 24 Aug 2019 20:54:11: 10000000 INFO @ Sat, 24 Aug 2019 20:54:14: 5000000 INFO @ Sat, 24 Aug 2019 20:54:14: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:14: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:14: #1 total tags in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:54:14: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:14: #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 20:54:14: #1 tags after filtering in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:54:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:14: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:14: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:15: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:15: 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 20:54:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.05_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/SRX5257230/SRX5257230.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:54:17: 1000000 INFO @ Sat, 24 Aug 2019 20:54:20: 6000000 INFO @ Sat, 24 Aug 2019 20:54:23: 2000000 INFO @ Sat, 24 Aug 2019 20:54:26: 7000000 INFO @ Sat, 24 Aug 2019 20:54:30: 3000000 INFO @ Sat, 24 Aug 2019 20:54:33: 8000000 INFO @ Sat, 24 Aug 2019 20:54:36: 4000000 INFO @ Sat, 24 Aug 2019 20:54:39: 9000000 INFO @ Sat, 24 Aug 2019 20:54:42: 5000000 INFO @ Sat, 24 Aug 2019 20:54:46: 10000000 INFO @ Sat, 24 Aug 2019 20:54:48: 6000000 INFO @ Sat, 24 Aug 2019 20:54:49: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:54:49: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:54:49: #1 total tags in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:54:49: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:54:49: #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 20:54:49: #1 tags after filtering in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:54:49: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:54:49: #1 finished! INFO @ Sat, 24 Aug 2019 20:54:49: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:54:49: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:54:50: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:54:50: 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 20:54:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.10_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/SRX5257230/SRX5257230.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 24 Aug 2019 20:54:54: 7000000 INFO @ Sat, 24 Aug 2019 20:55:00: 8000000 INFO @ Sat, 24 Aug 2019 20:55:06: 9000000 INFO @ Sat, 24 Aug 2019 20:55:12: 10000000 INFO @ Sat, 24 Aug 2019 20:55:15: #1 tag size is determined as 50 bps INFO @ Sat, 24 Aug 2019 20:55:15: #1 tag size = 50 INFO @ Sat, 24 Aug 2019 20:55:15: #1 total tags in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:55:15: #1 user defined the maximum tags... INFO @ Sat, 24 Aug 2019 20:55:15: #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 20:55:15: #1 tags after filtering in treatment: 10538108 INFO @ Sat, 24 Aug 2019 20:55:15: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 24 Aug 2019 20:55:15: #1 finished! INFO @ Sat, 24 Aug 2019 20:55:15: #2 Build Peak Model... INFO @ Sat, 24 Aug 2019 20:55:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 24 Aug 2019 20:55:16: #2 number of paired peaks: 0 WARNING @ Sat, 24 Aug 2019 20:55:16: 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 20:55:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.20_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/SRX5257230/SRX5257230.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5257230/SRX5257230.20_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。