Job ID = 2011786 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,291,286 reads read : 10,582,572 reads written : 5,291,286 reads 0-length : 5,291,286 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: 00:01:11 5291286 reads; of these: 5291286 (100.00%) were unpaired; of these: 2340198 (44.23%) aligned 0 times 2349882 (44.41%) aligned exactly 1 time 601206 (11.36%) aligned >1 times 55.77% overall alignment rate Time searching: 00:01:11 Overall time: 00:01:11 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] 1303218 / 2951088 = 0.4416 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 02:39:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.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 02:39:00: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:00: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.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 02:39:01: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:01: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.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 02:39:02: #1 read tag files... INFO @ Sat, 06 Jul 2019 02:39:02: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 02:39:10: 1000000 INFO @ Sat, 06 Jul 2019 02:39:12: 1000000 INFO @ Sat, 06 Jul 2019 02:39:14: 1000000 INFO @ Sat, 06 Jul 2019 02:39:16: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:39:16: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:39:16: #1 total tags in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:16: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:16: #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 02:39:16: #1 tags after filtering in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:16: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:39:16: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:16: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:16: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:16: #2 number of paired peaks: 16 WARNING @ Sat, 06 Jul 2019 02:39:16: Too few paired peaks (16) 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 02:39:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.05_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/SRX5028217/SRX5028217.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:39:18: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:39:18: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:39:18: #1 total tags in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:18: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:18: #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 02:39:18: #1 tags after filtering in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:39:18: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:18: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:18: #2 number of paired peaks: 16 WARNING @ Sat, 06 Jul 2019 02:39:18: Too few paired peaks (16) 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 02:39:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.20_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/SRX5028217/SRX5028217.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 02:39:21: #1 tag size is determined as 50 bps INFO @ Sat, 06 Jul 2019 02:39:21: #1 tag size = 50 INFO @ Sat, 06 Jul 2019 02:39:21: #1 total tags in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:21: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 02:39:21: #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 02:39:21: #1 tags after filtering in treatment: 1647870 INFO @ Sat, 06 Jul 2019 02:39:21: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 06 Jul 2019 02:39:21: #1 finished! INFO @ Sat, 06 Jul 2019 02:39:21: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 02:39:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 02:39:21: #2 number of paired peaks: 16 WARNING @ Sat, 06 Jul 2019 02:39:21: Too few paired peaks (16) 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 02:39:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.10_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/SRX5028217/SRX5028217.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX5028217/SRX5028217.10_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。