Job ID = 2011797 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 7,714,975 reads read : 15,429,950 reads written : 7,714,975 reads 0-length : 7,714,975 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: 00:01:29 7714975 reads; of these: 7714975 (100.00%) were unpaired; of these: 3209829 (41.61%) aligned 0 times 3662962 (47.48%) aligned exactly 1 time 842184 (10.92%) aligned >1 times 58.39% overall alignment rate Time searching: 00:01:29 Overall time: 00:01:29 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_rmdupse_core] 3482864 / 4505146 = 0.7731 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Sat, 06 Jul 2019 02:45:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.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, 06 Jul 2019 02:45:48: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:45:48: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:45:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.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, 06 Jul 2019 02:45:49: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:45:49: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:45:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.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, 06 Jul 2019 02:45:50: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:45:50: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:45:58: 1000000 INFO @ Sat, 06 Jul 2019 02:45:58: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:45:58: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:45:58: #1 total tags in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:45:58: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:45:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:45:58: #1 tags after filtering in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:45:58: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:45:58: #1 finished! INFO @ Sat, 06 Jul 2019 02:45:58: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:45:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:45:58: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 02:45:58: Too few paired peaks (28) 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, 06 Jul 2019 02:45:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.05_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/SRX5028227/SRX5028227.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:45:59: 1000000 INFO @ Sat, 06 Jul 2019 02:45:59: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:45:59: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:45:59: #1 total tags in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:45:59: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:45:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:45:59: #1 tags after filtering in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:45:59: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:45:59: #1 finished! INFO @ Sat, 06 Jul 2019 02:45:59: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:45:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:45:59: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 02:45:59: Too few paired peaks (28) 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, 06 Jul 2019 02:45:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.10_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/SRX5028227/SRX5028227.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:46:02: 1000000 INFO @ Sat, 06 Jul 2019 02:46:02: #1 tag size is determined as 51 bps INFO @ Sat, 06 Jul 2019 02:46:02: #1 tag size = 51 INFO @ Sat, 06 Jul 2019 02:46:02: #1 total tags in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:46:02: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:46:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 02:46:02: #1 tags after filtering in treatment: 1022282 INFO @ Sat, 06 Jul 2019 02:46:02: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:46:02: #1 finished! INFO @ Sat, 06 Jul 2019 02:46:02: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:46:02: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:46:03: #2 number of paired peaks: 28 WARNING @ Sat, 06 Jul 2019 02:46:03: Too few paired peaks (28) 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, 06 Jul 2019 02:46:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.20_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/SRX5028227/SRX5028227.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028227/SRX5028227.20_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。