Job ID = 2010430 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 20,180,654 reads read : 20,180,654 reads written : 20,180,654 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: 00:05:13 20180654 reads; of these: 20180654 (100.00%) were unpaired; of these: 3499288 (17.34%) aligned 0 times 14837898 (73.53%) aligned exactly 1 time 1843468 (9.13%) aligned >1 times 82.66% overall alignment rate Time searching: 00:05:13 Overall time: 00:05:13 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] 13016339 / 16681366 = 0.7803 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 @ Fri, 05 Jul 2019 22:52:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.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 @ Fri, 05 Jul 2019 22:52:43: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:52:43: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:52:44: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.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 @ Fri, 05 Jul 2019 22:52:44: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:52:44: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:52:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.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 @ Fri, 05 Jul 2019 22:52:45: #1 read tag files... INFO @ Fri, 05 Jul 2019 22:52:45: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 22:52:52: 1000000 INFO @ Fri, 05 Jul 2019 22:52:54: 1000000 INFO @ Fri, 05 Jul 2019 22:52:55: 1000000 INFO @ Fri, 05 Jul 2019 22:53:01: 2000000 INFO @ Fri, 05 Jul 2019 22:53:03: 2000000 INFO @ Fri, 05 Jul 2019 22:53:06: 2000000 INFO @ Fri, 05 Jul 2019 22:53:10: 3000000 INFO @ Fri, 05 Jul 2019 22:53:12: 3000000 INFO @ Fri, 05 Jul 2019 22:53:16: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:53:16: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:53:16: #1 total tags in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:16: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:53:16: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:53:16: #1 tags after filtering in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:16: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:53:16: #1 finished! INFO @ Fri, 05 Jul 2019 22:53:16: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:53:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:53:16: #2 number of paired peaks: 11 WARNING @ Fri, 05 Jul 2019 22:53:16: Too few paired peaks (11) 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 @ Fri, 05 Jul 2019 22:53:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05_peaks.narrowPeak: No such file or directory INFO @ Fri, 05 Jul 2019 22:53:16: 3000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:53:18: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:53:18: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:53:18: #1 total tags in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:18: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:53:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:53:18: #1 tags after filtering in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:18: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:53:18: #1 finished! INFO @ Fri, 05 Jul 2019 22:53:18: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:53:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:53:18: #2 number of paired peaks: 11 WARNING @ Fri, 05 Jul 2019 22:53:18: Too few paired peaks (11) 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 @ Fri, 05 Jul 2019 22:53:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.20_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/SRX377116/SRX377116.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 22:53:22: #1 tag size is determined as 51 bps INFO @ Fri, 05 Jul 2019 22:53:22: #1 tag size = 51 INFO @ Fri, 05 Jul 2019 22:53:22: #1 total tags in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:22: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 22:53:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 22:53:22: #1 tags after filtering in treatment: 3665027 INFO @ Fri, 05 Jul 2019 22:53:22: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 22:53:22: #1 finished! INFO @ Fri, 05 Jul 2019 22:53:22: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 22:53:22: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 22:53:23: #2 number of paired peaks: 11 WARNING @ Fri, 05 Jul 2019 22:53:23: Too few paired peaks (11) 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 @ Fri, 05 Jul 2019 22:53:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.10_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/SRX377116/SRX377116.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX377116/SRX377116.10_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。