Job ID = 2010787 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 3,619,266 reads read : 7,238,532 reads written : 3,619,266 reads 0-length : 3,619,266 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: 00:01:25 3619266 reads; of these: 3619266 (100.00%) were unpaired; of these: 504161 (13.93%) aligned 0 times 2720293 (75.16%) aligned exactly 1 time 394812 (10.91%) aligned >1 times 86.07% overall alignment rate Time searching: 00:01:25 Overall time: 00:01:25 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] 492473 / 3115105 = 0.1581 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 00:43:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.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 00:43:47: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:43:47: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:43:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.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 00:43:48: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:43:48: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:43:56: 1000000 INFO @ Sat, 06 Jul 2019 00:43:58: 1000000 INFO @ Sat, 06 Jul 2019 00:44:05: 2000000 INFO @ Sat, 06 Jul 2019 00:44:08: 2000000 INFO @ Sat, 06 Jul 2019 00:44:10: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 00:44:10: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 00:44:10: #1 total tags in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:10: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:10: #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 00:44:10: #1 tags after filtering in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:10: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:44:10: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:10: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:11: #2 number of paired peaks: 70 WARNING @ Sat, 06 Jul 2019 00:44:11: Too few paired peaks (70) 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 00:44:11: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.05_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/SRX4140900/SRX4140900.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:44:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.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 00:44:11: #1 read tag files... INFO @ Sat, 06 Jul 2019 00:44:11: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 00:44:14: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 00:44:14: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 00:44:14: #1 total tags in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:14: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:14: #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 00:44:14: #1 tags after filtering in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:44:14: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:14: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:15: #2 number of paired peaks: 70 WARNING @ Sat, 06 Jul 2019 00:44:15: Too few paired peaks (70) 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 00:44:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.10_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/SRX4140900/SRX4140900.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 00:44:21: 1000000 INFO @ Sat, 06 Jul 2019 00:44:31: 2000000 INFO @ Sat, 06 Jul 2019 00:44:37: #1 tag size is determined as 101 bps INFO @ Sat, 06 Jul 2019 00:44:37: #1 tag size = 101 INFO @ Sat, 06 Jul 2019 00:44:37: #1 total tags in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:37: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 00:44:37: #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 00:44:37: #1 tags after filtering in treatment: 2622632 INFO @ Sat, 06 Jul 2019 00:44:37: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 00:44:37: #1 finished! INFO @ Sat, 06 Jul 2019 00:44:37: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 00:44:37: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 00:44:37: #2 number of paired peaks: 70 WARNING @ Sat, 06 Jul 2019 00:44:37: Too few paired peaks (70) 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 00:44:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.20_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/SRX4140900/SRX4140900.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4140900/SRX4140900.20_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。