Job ID = 2010939 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 9,490,364 reads read : 18,980,728 reads written : 9,490,364 reads 0-length : 9,490,364 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: 00:01:22 9490364 reads; of these: 9490364 (100.00%) were unpaired; of these: 6010226 (63.33%) aligned 0 times 3070518 (32.35%) aligned exactly 1 time 409620 (4.32%) aligned >1 times 36.67% overall alignment rate Time searching: 00:01:22 Overall time: 00:01:22 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] 488453 / 3480138 = 0.1404 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 01:25:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.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 01:25:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:25:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:25:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.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 01:25:48: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:25:48: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:25:59: 1000000 INFO @ Sat, 06 Jul 2019 01:26:00: 1000000 INFO @ Sat, 06 Jul 2019 01:26:11: 2000000 INFO @ Sat, 06 Jul 2019 01:26:12: 2000000 INFO @ Sat, 06 Jul 2019 01:26:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.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 01:26:18: #1 read tag files... INFO @ Sat, 06 Jul 2019 01:26:18: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 01:26:23: #1 tag size is determined as 66 bps INFO @ Sat, 06 Jul 2019 01:26:23: #1 tag size = 66 INFO @ Sat, 06 Jul 2019 01:26:23: #1 total tags in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:23: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:26:23: #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 01:26:23: #1 tags after filtering in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:23: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:26:23: #1 finished! INFO @ Sat, 06 Jul 2019 01:26:23: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:26:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:26:24: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 01:26:24: Too few paired peaks (33) 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 01:26:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.05_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/SRX4342592/SRX4342592.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:26:24: #1 tag size is determined as 66 bps INFO @ Sat, 06 Jul 2019 01:26:24: #1 tag size = 66 INFO @ Sat, 06 Jul 2019 01:26:24: #1 total tags in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:24: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:26:24: #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 01:26:24: #1 tags after filtering in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:26:24: #1 finished! INFO @ Sat, 06 Jul 2019 01:26:24: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:26:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:26:24: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 01:26:24: Too few paired peaks (33) 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 01:26:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.10_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/SRX4342592/SRX4342592.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 01:26:27: 1000000 INFO @ Sat, 06 Jul 2019 01:26:36: 2000000 INFO @ Sat, 06 Jul 2019 01:26:44: #1 tag size is determined as 66 bps INFO @ Sat, 06 Jul 2019 01:26:44: #1 tag size = 66 INFO @ Sat, 06 Jul 2019 01:26:44: #1 total tags in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:44: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 01:26:44: #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 01:26:45: #1 tags after filtering in treatment: 2991685 INFO @ Sat, 06 Jul 2019 01:26:45: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 01:26:45: #1 finished! INFO @ Sat, 06 Jul 2019 01:26:45: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 01:26:45: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 01:26:45: #2 number of paired peaks: 33 WARNING @ Sat, 06 Jul 2019 01:26:45: Too few paired peaks (33) 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 01:26:45: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.20_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/SRX4342592/SRX4342592.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4342592/SRX4342592.20_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。