Job ID = 4289564 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 5,651,111 reads read : 5,651,111 reads written : 5,651,111 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: 00:00:39 5651111 reads; of these: 5651111 (100.00%) were unpaired; of these: 3326597 (58.87%) aligned 0 times 1785830 (31.60%) aligned exactly 1 time 538684 (9.53%) aligned >1 times 41.13% overall alignment rate Time searching: 00:00:39 Overall time: 00:00:39 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] 1751188 / 2324514 = 0.7534 in library ' ' BAM に変換しました。 Bed ファイルを作成中... INFO @ Tue, 10 Dec 2019 14:50:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.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 @ Tue, 10 Dec 2019 14:50:48: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:50:48: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:50:53: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:50:53: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:50:53: #1 total tags in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:50:53: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:50:53: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:50:53: #1 tags after filtering in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:50:53: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:50:53: #1 finished! INFO @ Tue, 10 Dec 2019 14:50:53: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:50:53: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:50:53: #2 number of paired peaks: 38 WARNING @ Tue, 10 Dec 2019 14:50:53: Too few paired peaks (38) 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 @ Tue, 10 Dec 2019 14:50:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.05_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/SRX6932548/SRX6932548.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 10 Dec 2019 14:51:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.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 @ Tue, 10 Dec 2019 14:51:18: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:51:18: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:51:23: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:51:23: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:51:23: #1 total tags in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:51:23: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:51:23: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:51:23: #1 tags after filtering in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:51:23: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:51:23: #1 finished! INFO @ Tue, 10 Dec 2019 14:51:23: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:51:23: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:51:23: #2 number of paired peaks: 38 WARNING @ Tue, 10 Dec 2019 14:51:23: Too few paired peaks (38) 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 @ Tue, 10 Dec 2019 14:51:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.10_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/SRX6932548/SRX6932548.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換中... INFO @ Tue, 10 Dec 2019 14:51:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.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 @ Tue, 10 Dec 2019 14:51:50: #1 read tag files... INFO @ Tue, 10 Dec 2019 14:51:50: #1 read treatment tags... INFO @ Tue, 10 Dec 2019 14:51:59: #1 tag size is determined as 40 bps INFO @ Tue, 10 Dec 2019 14:51:59: #1 tag size = 40 INFO @ Tue, 10 Dec 2019 14:51:59: #1 total tags in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:51:59: #1 user defined the maximum tags... INFO @ Tue, 10 Dec 2019 14:51:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 10 Dec 2019 14:51:59: #1 tags after filtering in treatment: 573326 INFO @ Tue, 10 Dec 2019 14:51:59: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 10 Dec 2019 14:51:59: #1 finished! INFO @ Tue, 10 Dec 2019 14:51:59: #2 Build Peak Model... INFO @ Tue, 10 Dec 2019 14:51:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 10 Dec 2019 14:51:59: #2 number of paired peaks: 38 WARNING @ Tue, 10 Dec 2019 14:51:59: Too few paired peaks (38) 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 @ Tue, 10 Dec 2019 14:51:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6932548/SRX6932548.20_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。