Job ID = 2007589 sra ファイルのダウンロード中... Read layout: SINGLE fastq に変換中... spots read : 1,837,597 reads read : 1,837,597 reads written : 1,837,597 spots read : 1,745,818 reads read : 1,745,818 reads written : 1,745,818 spots read : 1,793,623 reads read : 1,793,623 reads written : 1,793,623 spots read : 1,759,173 reads read : 1,759,173 reads written : 1,759,173 rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR2529702.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR2529703.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR2529704.sra.cache’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR2529705.sra.cache’: 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: 00:01:45 7136211 reads; of these: 7136211 (100.00%) were unpaired; of these: 496950 (6.96%) aligned 0 times 5374784 (75.32%) aligned exactly 1 time 1264477 (17.72%) aligned >1 times 93.04% overall alignment rate Time searching: 00:01:45 Overall time: 00:01:45 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] 5931269 / 6639261 = 0.8934 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 16:02:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.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 16:02:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:02:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:02:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.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 16:02:01: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:02:01: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:02:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.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 16:02:02: #1 read tag files... INFO @ Fri, 05 Jul 2019 16:02:02: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 16:02:06: #1 tag size is determined as 75 bps INFO @ Fri, 05 Jul 2019 16:02:06: #1 tag size = 75 INFO @ Fri, 05 Jul 2019 16:02:06: #1 total tags in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:06: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:02:06: #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 16:02:06: #1 tags after filtering in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:06: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:02:06: #1 finished! INFO @ Fri, 05 Jul 2019 16:02:06: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:02:06: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:02:06: #2 number of paired peaks: 88 WARNING @ Fri, 05 Jul 2019 16:02:06: Too few paired peaks (88) 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 16:02:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 129 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:02:08: #1 tag size is determined as 75 bps INFO @ Fri, 05 Jul 2019 16:02:08: #1 tag size = 75 INFO @ Fri, 05 Jul 2019 16:02:08: #1 total tags in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:08: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:02:08: #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 16:02:09: #1 tags after filtering in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:09: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:02:09: #1 finished! INFO @ Fri, 05 Jul 2019 16:02:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:02:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:02:09: #2 number of paired peaks: 88 WARNING @ Fri, 05 Jul 2019 16:02:09: Too few paired peaks (88) 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 16:02:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 339 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 16:02:10: #1 tag size is determined as 75 bps INFO @ Fri, 05 Jul 2019 16:02:10: #1 tag size = 75 INFO @ Fri, 05 Jul 2019 16:02:10: #1 total tags in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:10: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 16:02:10: #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 16:02:10: #1 tags after filtering in treatment: 707992 INFO @ Fri, 05 Jul 2019 16:02:10: #1 Redundant rate of treatment: 0.00 INFO @ Fri, 05 Jul 2019 16:02:10: #1 finished! INFO @ Fri, 05 Jul 2019 16:02:10: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 16:02:10: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 16:02:10: #2 number of paired peaks: 88 WARNING @ Fri, 05 Jul 2019 16:02:10: Too few paired peaks (88) 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 16:02:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 17 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX2548215/ERX2548215.20_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。